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GIT Logs
This is a list of recent commits to git.bioconductor.org, the devel(development) branch of the Bioconductor GIT repository.
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Package: ProteinBatcher
Commit: 1c6df35e6b9a0f0f333f23521ff00b7bd5ff508f
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-21 18:59:35 +0200
Commit message:
Commit: 1c6df35e6b9a0f0f333f23521ff00b7bd5ff508f
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-21 18:59:35 +0200
Commit message:
0.99.7: optional annotation columns, configurable block_var, mzTab dispatch fix, contrast naming fix, DESCRIPTION/NAMESPACE sync
Package: ProteinBatcher
Commit: 0947a727ef1879f022bdc459018091114854098a
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-07-20 16:04:15 +0200
Commit message:
Commit: 0947a727ef1879f022bdc459018091114854098a
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-07-20 16:04:15 +0200
Commit message:
Update to read .SDRF format for experimental results design
Package: ProteinBatcher
Commit: 7299cde412fb5210b812b7c95de79d2053eda248
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-07-20 16:03:24 +0200
Commit message:
Commit: 7299cde412fb5210b812b7c95de79d2053eda248
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-07-20 16:03:24 +0200
Commit message:
Incorporating .SDRF format for experimental design matrix
Package: methylclockData
Commit: f0e667d69b4ad6150cc5ce6dc61bee9aa56fb1cb
Author: dpelegri <43083225+dpelegri@users.noreply.github.com>
Date: 2026-08-21 18:25:16 +0200
Commit message:
Commit: f0e667d69b4ad6150cc5ce6dc61bee9aa56fb1cb
Author: dpelegri <43083225+dpelegri@users.noreply.github.com>
Date: 2026-08-21 18:25:16 +0200
Commit message:
Fill in the ExperimentHub ids EH10460-EH10487 and bump to 1.21.2 The hubs team loaded the 28 resources into the production database and assigned EH10460-EH10487. Each accessor now carries its id instead of the EH_PENDING placeholder. Metadata updated to the form the hubs team requested: Location_Prefix is https://zenodo.org/ and the rest of the path moved to RDataPath, matching their correction. LICENSE reduced to the YEAR / COPYRIGHT HOLDER template R expects; the full MIT text moves to LICENSE.md, kept out of the build.
Package: scrapper
Commit: a31dbc034c8de03f434020ed917f4b37d018bfe8
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 02:09:07 +1000
Commit message:
Commit: a31dbc034c8de03f434020ed917f4b37d018bfe8
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 02:09:07 +1000
Commit message:
Bumped version and date, rebuilt namespace.
Package: scrapper
Commit: bed70e7e72f100a23692c8a36b4c34e05b398299
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 00:48:06 +1000
Commit message:
Commit: bed70e7e72f100a23692c8a36b4c34e05b398299
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 00:48:06 +1000
Commit message:
Update C++ bindings for the latest libraries in assorthead. The biggest user-visible change is that the number and ordering of factor levels are now respected in any group= or block= argument. This is possible via the the new num_groups/num_blocks= arguments in the C++ functions. Also added some explicit tests for .transformFactor().
Package: biomaRt
Commit: 2b496cbf6d73c2573d2ed57027287e652db0ec4c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:04:10 +0200
Commit message:
Commit: 2b496cbf6d73c2573d2ed57027287e652db0ec4c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:04:10 +0200
Commit message:
Bump version
Package: biomaRt
Commit: 79aa423c07dcde35f8912dcb377a70b1701514aa
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:03:57 +0200
Commit message:
Commit: 79aa423c07dcde35f8912dcb377a70b1701514aa
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:03:57 +0200
Commit message:
Document setEnsemblSSL() removal
Package: biomaRt
Commit: 4b8b60157f4fbca9575d831043bb52d1f1f89935
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:02:58 +0200
Commit message:
Commit: 4b8b60157f4fbca9575d831043bb52d1f1f89935
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 18:02:58 +0200
Commit message:
Remove SSL modification recommendation from vignette
Package: biomaRt
Commit: 3d8555fac60f64e11f9b15619457e26ce1d4f2af
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 17:13:40 +0200
Commit message:
Commit: 3d8555fac60f64e11f9b15619457e26ce1d4f2af
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 17:13:40 +0200
Commit message:
Prepare deprecation of SSL settings modification
Package: biomaRt
Commit: 0aeaaa4b73ac0efd96afadb27b0affc9b7dd6ea4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:50:39 +0200
Commit message:
Commit: 0aeaaa4b73ac0efd96afadb27b0affc9b7dd6ea4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:50:39 +0200
Commit message:
Rename for mock test
Package: biomaRt
Commit: 5f9b4a03001392421d6b7967a14c8964d5c5df7c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:24:29 +0200
Commit message:
Commit: 5f9b4a03001392421d6b7967a14c8964d5c5df7c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:24:29 +0200
Commit message:
Do not eval HTTP 500 chunk for now
Package: biomaRt
Commit: 0b4f42efacfd0a7f18f84b879613479b439ca2cc
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:15:27 +0200
Commit message:
Commit: 0b4f42efacfd0a7f18f84b879613479b439ca2cc
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:15:27 +0200
Commit message:
Remove Collate
Package: biomaRt
Commit: b4833d79378afc91af45a9b252a4239272df195d
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:27:01 +0200
Commit message:
Commit: b4833d79378afc91af45a9b252a4239272df195d
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:27:01 +0200
Commit message:
Leverage dynamic dots in req_url_query()
Package: biomaRt
Commit: 67ae68a0e50ffc5c750b638d0e783aa77ab62e61
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:11:15 +0200
Commit message:
Commit: 67ae68a0e50ffc5c750b638d0e783aa77ab62e61
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:11:15 +0200
Commit message:
Factor out guess port util
Package: biomaRt
Commit: 36a303de4466d11f03fa5d12cb3fe81cdddbfc18
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:55:46 +0200
Commit message:
Commit: 36a303de4466d11f03fa5d12cb3fe81cdddbfc18
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:55:46 +0200
Commit message:
Simplify sep definition
Package: biomaRt
Commit: 4bbb85a9e2aa8bc4a38f4cdec6527bfcd4b81dba
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:51:36 +0200
Commit message:
Commit: 4bbb85a9e2aa8bc4a38f4cdec6527bfcd4b81dba
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:51:36 +0200
Commit message:
Run devtools::document()
Package: biomaRt
Commit: 25f932f1f1e81928534d8a4ec86a8d7a1a20b9ca
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:51:26 +0200
Commit message:
Commit: 25f932f1f1e81928534d8a4ec86a8d7a1a20b9ca
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:51:26 +0200
Commit message:
Reduce duplication by moving code to bmRequest()
Package: biomaRt
Commit: f4764a53d5b490818291eb18e263aa21d611a370
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 17:06:39 +0200
Commit message:
Commit: f4764a53d5b490818291eb18e263aa21d611a370
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 17:06:39 +0200
Commit message:
Silence namespace linter
Package: biomaRt
Commit: 8a34a0a6effe742acb8a9cf41fe081fd0743d50c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:09:51 +0200
Commit message:
Commit: 8a34a0a6effe742acb8a9cf41fe081fd0743d50c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:09:51 +0200
Commit message:
Bump version
Package: biomaRt
Commit: e56b60e3463a645a62e37f1286a6775ec1dd3377
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:09:02 +0200
Commit message:
Commit: e56b60e3463a645a62e37f1286a6775ec1dd3377
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:09:02 +0200
Commit message:
Document all changes in NEWS
Package: biomaRt
Commit: 01240962a41bc72483703d950ca4233a1f083920
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:02:56 +0200
Commit message:
Commit: 01240962a41bc72483703d950ca4233a1f083920
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:02:56 +0200
Commit message:
Use standard workflow
Package: biomaRt
Commit: c23d02862e906fef32870ae097cd62d4fcd1762e
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:01:11 +0200
Commit message:
Commit: c23d02862e906fef32870ae097cd62d4fcd1762e
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 16:01:11 +0200
Commit message:
Run vignettes on CI
Package: biomaRt
Commit: 1fbd4191c9031b7a8791cbae9447863dab5e815d
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:20:58 +0200
Commit message:
Commit: 1fbd4191c9031b7a8791cbae9447863dab5e815d
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:20:58 +0200
Commit message:
Small docs tweaks
Package: biomaRt
Commit: 019cda97409249c860985aa2d7853726e8021d89
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:18:32 +0200
Commit message:
Commit: 019cda97409249c860985aa2d7853726e8021d89
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:18:32 +0200
Commit message:
Run devtools::document()
Package: biomaRt
Commit: ad7155beea1a6a1b07caf6afe2ea0bb793e1cfd4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:00:22 +0200
Commit message:
Commit: ad7155beea1a6a1b07caf6afe2ea0bb793e1cfd4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 15:00:22 +0200
Commit message:
Add dataset to pkgdown reference index
Package: biomaRt
Commit: 7c354a4bbde40997af8645fff89d35535524f65b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:59:54 +0200
Commit message:
Commit: 7c354a4bbde40997af8645fff89d35535524f65b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:59:54 +0200
Commit message:
Exclude data-raw/ from lintr config
Package: biomaRt
Commit: 1d9901cce2b6eb2ea3c05d62fc52a88e986bd015
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:50:01 +0200
Commit message:
Commit: 1d9901cce2b6eb2ea3c05d62fc52a88e986bd015
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:50:01 +0200
Commit message:
Fix test
Package: biomaRt
Commit: 961d0c4d8d85bc78fe1fef292e7a2df5d4b52dfc
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:49:57 +0200
Commit message:
Commit: 961d0c4d8d85bc78fe1fef292e7a2df5d4b52dfc
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:49:57 +0200
Commit message:
Use local archive cache in .constructEnsemblURL()
Package: biomaRt
Commit: b6259f1c9ffc963cdb3559ce96cf97146487c0ce
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:45:05 +0200
Commit message:
Commit: b6259f1c9ffc963cdb3559ce96cf97146487c0ce
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:45:05 +0200
Commit message:
Add local ensembl_versions to listEnsemblArchives()
Package: biomaRt
Commit: 8baaa9168f2185232b765d0bed1c6d536951c803
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:28:12 +0200
Commit message:
Commit: 8baaa9168f2185232b765d0bed1c6d536951c803
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 14:28:12 +0200
Commit message:
Add local version <-> release data map
Package: biomaRt
Commit: 1df52d4328b981838db150d8fce025b28886b04c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-13 20:03:10 +0200
Commit message:
Commit: 1df52d4328b981838db150d8fce025b28886b04c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-13 20:03:10 +0200
Commit message:
Simplify mart short name lookup
Package: biomaRt
Commit: 5b5badbce9ffb4a1b31cd6c5f7dc84330528a665
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:00:47 +0200
Commit message:
Commit: 5b5badbce9ffb4a1b31cd6c5f7dc84330528a665
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 11:00:47 +0200
Commit message:
Run devtools::document()
Package: biomaRt
Commit: 38bd21d301b562849d460ae67e16797750a53dd1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:15:44 +0200
Commit message:
Commit: 38bd21d301b562849d460ae67e16797750a53dd1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 10:15:44 +0200
Commit message:
Default to jun2026 archive
Package: biomaRt
Commit: 42909dfe9cf2596433e80b2f68f19a9bdc9e7e21
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 08:34:06 +0200
Commit message:
Commit: 42909dfe9cf2596433e80b2f68f19a9bdc9e7e21
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-21 08:34:06 +0200
Commit message:
Avoid redirect from archive
Package: biomaRt
Commit: 0f7b30e60051e3894c95670fd33841bdbc477848
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 19:58:50 +0200
Commit message:
Commit: 0f7b30e60051e3894c95670fd33841bdbc477848
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 19:58:50 +0200
Commit message:
Remove unused function
Package: biomaRt
Commit: 3c563e0ef5b4c2d7626054535b8f84f7048981f4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 22:49:58 +0200
Commit message:
Commit: 3c563e0ef5b4c2d7626054535b8f84f7048981f4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 22:49:58 +0200
Commit message:
Avoid createHash step is not using cache
Package: biomaRt
Commit: 4725a825bc005fdd137f935aa0aaa4945034576c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 20:03:12 +0200
Commit message:
Commit: 4725a825bc005fdd137f935aa0aaa4945034576c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 20:03:12 +0200
Commit message:
Do not force redirect to base ensembl site
Package: carnation
Commit: 1ac0ba123c09a1f207c2e6862c912a9aa14809d1
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2026-08-21 11:40:16 -0400
Commit message:
Commit: 1ac0ba123c09a1f207c2e6862c912a9aa14809d1
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2026-08-21 11:40:16 -0400
Commit message:
Merge pull request #34 from NICHD-BSPC/v1.1.1 ## minor planned release (v1.1.1): ### various bug fixes - The pca plot was breaking if multiple coloring variables were selected. This was handled by wrapping a condition inside an `if()` statement in `all()`. - For a dataset with multiple pattern analyses, switching between them was refreshing the plot with an incorrect set of clusters. This was because of race conditions - the set of clusters to be shown was not updating in time before the plot was refreshed. The fix was to set a data load flag for initial plotting, and having the plot wait for a `refresh` for subsequent updates. - The scatter plot module was not correctly resetting clicked genes when loading a new dataset. Now the selected genes (and other) cache is correctly reset during data load. - Pattern plot & gene plot x-axis levels (bucket list) were not updating on initial load. This was fixed by updating the reactive values with the initial set of x-axis levels during the initial data load, without depending on an observer cascade. - The visible (plotly) gene plot and downloaded versions were not matching because of different ways of handling boxes and data grouping between `plotly` and `ggplot2`. This is now fixed. ### minor feature updates: - Some gene plot settings are reorganized for better visibility. Specifically, the settings dropdown now has a *sample settings* group which includes `normalization` - relocated from `More options`, and a *plot options* group listing x-axis variable, coloring variable, faceting variable along with `free y axes` - relocated from `y-axis settings`. - The gene plot now has a `box position` input to choose between dodged or overlapping boxes. - The summary table in the `DE analysis` module, now has a `dds_object` column to show which `dds_list` object was used for the contrast.
Package: carnation
Commit: ec60c368689e39c126d53ae505b658dda999a071
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-08-21 11:14:42 -0400
Commit message:
Commit: ec60c368689e39c126d53ae505b658dda999a071
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-08-21 11:14:42 -0400
Commit message:
bump version
Package: carnation
Commit: 15d8a9244a5eaa5d74467ccb46e609aedffe4b05
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-08-21 11:13:42 -0400
Commit message:
Commit: 15d8a9244a5eaa5d74467ccb46e609aedffe4b05
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-08-21 11:13:42 -0400
Commit message:
add action to sync r4.3 w devel
Package: carnation
Commit: 3cea3dfdf0c3de2fe228f94245ba65f563cb4b9c
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-31 09:21:33 -0400
Commit message:
Commit: 3cea3dfdf0c3de2fe228f94245ba65f563cb4b9c
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-31 09:21:33 -0400
Commit message:
mv text aes back to main plt
Package: carnation
Commit: 2975d9ff8ede3f3a7834860311138360bc23dd3a
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:52:14 -0400
Commit message:
Commit: 2975d9ff8ede3f3a7834860311138360bc23dd3a
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:52:14 -0400
Commit message:
add sample selector to gene plt
Package: carnation
Commit: d1084ff87ecba2b780469851e3ba7787df28448e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:52:02 -0400
Commit message:
Commit: d1084ff87ecba2b780469851e3ba7787df28448e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:52:02 -0400
Commit message:
rm comment
Package: carnation
Commit: a95850ec19ab2cbfe780ebc62b5b919cf82bbc64
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:49:52 -0400
Commit message:
Commit: a95850ec19ab2cbfe780ebc62b5b919cf82bbc64
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-30 16:49:52 -0400
Commit message:
mv text aes
Package: carnation
Commit: 59f2829dd659d315c1f16acb214087c963e183d6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-27 16:39:57 -0400
Commit message:
Commit: 59f2829dd659d315c1f16acb214087c963e183d6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-27 16:39:57 -0400
Commit message:
don't run bioccheck & conda actions for devel
Package: carnation
Commit: 03f7eb394ea0b91910837ec06bbe7ce4eb7f32c3
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-27 16:11:11 -0400
Commit message:
Commit: 03f7eb394ea0b91910837ec06bbe7ce4eb7f32c3
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-27 16:11:11 -0400
Commit message:
add any to handle mult facet.cols in gene plt
Package: carnation
Commit: 35572aaa6743bcf8aa8ec562b1b42204ff74fd49
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 16:01:36 -0400
Commit message:
Commit: 35572aaa6743bcf8aa8ec562b1b42204ff74fd49
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 16:01:36 -0400
Commit message:
grp by color for gene box plot
Package: carnation
Commit: 6d2e2ce6b9e7bc91938d8733edd4f4fb3b298769
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 14:01:05 -0400
Commit message:
Commit: 6d2e2ce6b9e7bc91938d8733edd4f4fb3b298769
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 14:01:05 -0400
Commit message:
updt gene plt test to include box_dodge input
Package: carnation
Commit: 8814e8ea7f1a304bc994cf5bfc0ad0ae942f1743
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:30:18 -0400
Commit message:
Commit: 8814e8ea7f1a304bc994cf5bfc0ad0ae942f1743
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:30:18 -0400
Commit message:
run conda, bioccheck actions on r4.3 branch
Package: carnation
Commit: 90f5aa15557921e8929e1227e46dfed7582b3ae7
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:04:17 -0400
Commit message:
Commit: 90f5aa15557921e8929e1227e46dfed7582b3ae7
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:04:17 -0400
Commit message:
run actions fr both main, devel
Package: carnation
Commit: 646505679eef050440aeea9ae0b178dcd42674ef
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:55 -0400
Commit message:
Commit: 646505679eef050440aeea9ae0b178dcd42674ef
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:55 -0400
Commit message:
add check fr data read error
Package: carnation
Commit: 2e552740429579bf1efb7f288a33368bbfa190b2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:36 -0400
Commit message:
Commit: 2e552740429579bf1efb7f288a33368bbfa190b2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:36 -0400
Commit message:
make type of data dropdown wider
Package: carnation
Commit: 0da37f5fc584ad1bb6faa262b52faca1dc09e957
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:03 -0400
Commit message:
Commit: 0da37f5fc584ad1bb6faa262b52faca1dc09e957
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:02:03 -0400
Commit message:
adj header spacing
Package: carnation
Commit: 438ab10589eb9338f453e47974804d2eceec7c55
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:01:27 -0400
Commit message:
Commit: 438ab10589eb9338f453e47974804d2eceec7c55
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:01:27 -0400
Commit message:
decouple sctr plt sel show/reset in tbl
Package: carnation
Commit: 5b4020ec2161e7d26446189c62f5390dc70abd6c
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:00:46 -0400
Commit message:
Commit: 5b4020ec2161e7d26446189c62f5390dc70abd6c
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:00:46 -0400
Commit message:
add validate to wait fr inputs
Package: carnation
Commit: 1f64556051f405a7abaae0dc2b616cfd4c3b7338
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:00:25 -0400
Commit message:
Commit: 1f64556051f405a7abaae0dc2b616cfd4c3b7338
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 13:00:25 -0400
Commit message:
reset sctr cache on new data load
Package: carnation
Commit: f979f2358d27271904c5865d274369d6bb7c18be
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:59:59 -0400
Commit message:
Commit: f979f2358d27271904c5865d274369d6bb7c18be
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:59:59 -0400
Commit message:
show dds obj fr contrst in summ tbl
Package: carnation
Commit: 7edc2c249f5c8868af1567d011eb5ad9f10a827e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:59:42 -0400
Commit message:
Commit: 7edc2c249f5c8868af1567d011eb5ad9f10a827e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:59:42 -0400
Commit message:
updt geneplt docs & help
Package: carnation
Commit: 14e8ab90b744c1ad6ef156e9ac91bed2f1b9608e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:04:51 -0400
Commit message:
Commit: 14e8ab90b744c1ad6ef156e9ac91bed2f1b9608e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:04:51 -0400
Commit message:
switch frm name to text fr hover tooltip
Package: carnation
Commit: bf3c14b71606c7f188baed44810eaf0cbd49f3d6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:04:11 -0400
Commit message:
Commit: bf3c14b71606c7f188baed44810eaf0cbd49f3d6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:04:11 -0400
Commit message:
handle dodged box plt in plotly plt
Package: carnation
Commit: 9be5177c44628acd6d27a14eac60ab5e3427ef34
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:03:42 -0400
Commit message:
Commit: 9be5177c44628acd6d27a14eac60ab5e3427ef34
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:03:42 -0400
Commit message:
add gene plt box dodge option
Package: carnation
Commit: f2194e011f6862648e6bab5f58554402f7a37ff0
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:02:34 -0400
Commit message:
Commit: f2194e011f6862648e6bab5f58554402f7a37ff0
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:02:34 -0400
Commit message:
get x-axis lvls on init load fr bucket list
Package: carnation
Commit: 207f583bef593bb45b48959b78c05db77f8f4010
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:01:14 -0400
Commit message:
Commit: 207f583bef593bb45b48959b78c05db77f8f4010
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 12:01:14 -0400
Commit message:
reorg settings for visibility, switch frm checkbox to select inputs
Package: carnation
Commit: c1207308e689f2b9cd465a00d6dcedefca99094d
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:56:50 -0400
Commit message:
Commit: c1207308e689f2b9cd465a00d6dcedefca99094d
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:56:50 -0400
Commit message:
patternplt: set init xaxis lvls fr bucket list
Package: carnation
Commit: 5cd73c34055ff514c20f0901d2e3ad6ba3d62f7e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:49:21 -0400
Commit message:
Commit: 5cd73c34055ff514c20f0901d2e3ad6ba3d62f7e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:49:21 -0400
Commit message:
add data load flag to toggle first load & plt
Package: carnation
Commit: a9a16f6a2093e72e9ef8c560a39d80e080d0762e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:53 -0400
Commit message:
Commit: a9a16f6a2093e72e9ef8c560a39d80e080d0762e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:53 -0400
Commit message:
decouple plot data obj from var lvls updt
Package: carnation
Commit: 6476551f0ffe87fe3de75a4652c58872e640770e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:36 -0400
Commit message:
Commit: 6476551f0ffe87fe3de75a4652c58872e640770e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:36 -0400
Commit message:
updt facet var lvls on init load
Package: carnation
Commit: 8b8d773aec0c774d19d579bfbb64d63b79b190a2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:01 -0400
Commit message:
Commit: 8b8d773aec0c774d19d579bfbb64d63b79b190a2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:48:01 -0400
Commit message:
mv reset pattern data to func
Package: carnation
Commit: 28a7af127d46abefc0f1d80c2d2eb817245663f9
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:18:20 -0400
Commit message:
Commit: 28a7af127d46abefc0f1d80c2d2eb817245663f9
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:18:20 -0400
Commit message:
correctly handle mult color vars in pca
Package: carnation
Commit: 2043d981c6942911d84e11989bca203e525f75ec
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:17:36 -0400
Commit message:
Commit: 2043d981c6942911d84e11989bca203e525f75ec
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-07-24 09:17:36 -0400
Commit message:
add check for mult gene cols in res
Package: BiocNeighbors
Commit: 0fc21d1027f138d07837d323f3d7058561e25cee
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 11:41:29 +1000
Commit message:
Commit: 0fc21d1027f138d07837d323f3d7058561e25cee
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 11:41:29 +1000
Commit message:
Bumped version to trigger a recompilation.
Package: beachmat.tiledb
Commit: ba12275711503607f2b5564656ed1aed75e9c2fa
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 11:05:55 +1000
Commit message:
Commit: ba12275711503607f2b5564656ed1aed75e9c2fa
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 11:05:55 +1000
Commit message:
Relax tests for floating-point differences in multi-threaded tatami.sums.
Package: beachmat.hdf5
Commit: e65542e20808f5db9e5643f4fe3753f7259b6ff2
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 01:55:04 +1000
Commit message:
Commit: e65542e20808f5db9e5643f4fe3753f7259b6ff2
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 01:55:04 +1000
Commit message:
Updated tests for possible floating-point differences in multi-threaded sums.
Package: beachmat
Commit: b91a0d8c7c6859c3ac6995bf67f85604e8cfeb79
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 00:42:44 +1000
Commit message:
Commit: b91a0d8c7c6859c3ac6995bf67f85604e8cfeb79
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 00:42:44 +1000
Commit message:
Updates to the latest roxygen format, bumped version and date.
Package: beachmat
Commit: 7612bb47b5397a092caea42caefe0ad902b52679
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-20 23:59:47 +1000
Commit message:
Commit: 7612bb47b5397a092caea42caefe0ad902b52679
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-20 23:59:47 +1000
Commit message:
Updates bindings for tatami_stats, tatami_mult functions. - Added num.groups= argument to tatami.sums.by.group(). - Skip creation of a vector of pointers for the dense matrix product.
Package: assorthead
Commit: 93b0abde504e0a4ef947d201d38086fe33405f8e
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 00:20:23 +1000
Commit message:
Commit: 93b0abde504e0a4ef947d201d38086fe33405f8e
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-22 00:20:23 +1000
Commit message:
Update to the latest versions of all vendored libraries.
Package: tidybulk
Commit: 52b69663687da457d23b6d8afcee697dea949a30
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 23:22:32 +0930
Commit message:
Commit: 52b69663687da457d23b6d8afcee697dea949a30
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 23:22:32 +0930
Commit message:
version up with Bioconductor Merge branch 'devel' of git.bioconductor.org:packages/tidybulk # Conflicts: # DESCRIPTION
Package: tidybulk
Commit: c30d4d29afee8165bfa217ebf8fd8625da1fdedb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 21:39:35 +0930
Commit message:
Commit: c30d4d29afee8165bfa217ebf8fd8625da1fdedb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 21:39:35 +0930
Commit message:
Merge pull request #341 from gaoyingnan-academic/keep_abundant_per_category Keep abundant per category as an alternative filtering method
Package: tidybulk
Commit: b0b9c4c055fb232a9f112b21383ea245859a5287
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 21:27:38 +0930
Commit message:
Commit: b0b9c4c055fb232a9f112b21383ea245859a5287
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 21:27:38 +0930
Commit message:
Add unit tests for keep/identify_abundant_per_category Cover threshold filtering, formula_design, CPM override, minimum_category, parameter validation, and force replacement so the PR includes tests as requested in review. Co-authored-by: Cursor <cursoragent@cursor.com>
Package: tidybulk
Commit: 0ab6df4c2b24440a9a315ebdc171b3a8bb1ea06c
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-05-05 08:39:15 +0000
Commit message:
Commit: 0ab6df4c2b24440a9a315ebdc171b3a8bb1ea06c
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-05-05 08:39:15 +0000
Commit message:
Move category-aware filtering description from README to vignette only Agent-Logs-Url: https://github.com/tidyomics/tidybulk/sessions/35559420-c05c-4207-b057-63d818bca5a4 Co-authored-by: stemangiola <7232890+stemangiola@users.noreply.github.com>
Package: tidybulk
Commit: bff851d6672776f0a50e28fe2ae0e2d7d2722d8b
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-05-05 08:34:22 +0000
Commit message:
Commit: bff851d6672776f0a50e28fe2ae0e2d7d2722d8b
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-05-05 08:34:22 +0000
Commit message:
Document keep_abundant_per_category and identify_abundant_per_category functions (PR #341) Agent-Logs-Url: https://github.com/tidyomics/tidybulk/sessions/6629bc9d-eb57-4447-8225-94694486a312 Co-authored-by: stemangiola <7232890+stemangiola@users.noreply.github.com>
Package: tidybulk
Commit: 75515c2fe2b1c8d0a2b92382ce7929b47f788a28
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:36:54 +0930
Commit message:
Commit: 75515c2fe2b1c8d0a2b92382ce7929b47f788a28
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:36:54 +0930
Commit message:
Fix documentation issues
Package: tidybulk
Commit: a888b8272e5e8299eac6a62c930845c65c6a3d56
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:16:43 +0930
Commit message:
Commit: a888b8272e5e8299eac6a62c930845c65c6a3d56
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:16:43 +0930
Commit message:
Update documentation by roxygen2 Automatically generated updates on documentation.
Package: tidybulk
Commit: f7b99560004ed62f8eefcf34534c8d03ec35eba3
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:11:49 +0930
Commit message:
Commit: f7b99560004ed62f8eefcf34534c8d03ec35eba3
Author: Yingnan Gao <52718100+gaoyingnan-academic@users.noreply.github.com>
Date: 2026-04-17 15:11:49 +0930
Commit message:
Create keep_identify_abundant_per_category.R Initial commit for experimental filtering functions.
Package: tidybulk
Commit: e87cbf7c52957eeb5675e912007123846611cd06
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 18:33:07 +0930
Commit message:
Commit: e87cbf7c52957eeb5675e912007123846611cd06
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 18:33:07 +0930
Commit message:
Merge pull request #344 from jaspitzer/tidybulk_plotting_functions added a plotting function for reduced dim
Package: tidybulk
Commit: 2e7222e33dcf6deaf3fa78fd878581974f146bfe
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:15:25 +0930
Commit message:
Commit: 2e7222e33dcf6deaf3fa78fd878581974f146bfe
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:15:25 +0930
Commit message:
Add plot_reduced_dimension examples to vignettes Show the helper after the existing ggplot reduced-dimension plots in introduction and comparison_coding. Co-authored-by: Cursor <cursoragent@cursor.com>
Package: tidybulk
Commit: 974bc6eae077fbb30c84cce00fde65c3dce4f019
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:12:35 +0930
Commit message:
Commit: 974bc6eae077fbb30c84cce00fde65c3dce4f019
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:12:35 +0930
Commit message:
Rename plot_reduced_dim to plot_reduced_dimension S4 method Expose plot_reduced_dimension as an S4 generic with SummarizedExperiment and RangedSummarizedExperiment methods, matching other tidybulk APIs. Co-authored-by: Cursor <cursoragent@cursor.com>
Package: tidybulk
Commit: cffbe477a21f9249f9dc8c9459dc1848f3e04cda
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:09:26 +0930
Commit message:
Commit: cffbe477a21f9249f9dc8c9459dc1848f3e04cda
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:09:26 +0930
Commit message:
Bump version to 2.1.5 Co-authored-by: Cursor <cursoragent@cursor.com>
Package: tidybulk
Commit: 28c8c84d8a2f50dc4a02260a3db609c9be49c455
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:06:54 +0930
Commit message:
Commit: 28c8c84d8a2f50dc4a02260a3db609c9be49c455
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-21 09:06:54 +0930
Commit message:
Skip pkgdown deploy on pull requests Fork PRs cannot push to gh-pages with GITHUB_TOKEN (403), which was failing the Ubuntu rworkflows job. Co-authored-by: Cursor <cursoragent@cursor.com>
Package: tidybulk
Commit: af1e5c685704cf80830a3590fedb2ca093ab151f
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 10:11:26 +0300
Commit message:
Commit: af1e5c685704cf80830a3590fedb2ca093ab151f
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 10:11:26 +0300
Commit message:
added a plotting function for reduced dim
Package: tidybulk
Commit: 082fa8bd77e91100b990c0677d5cf8bf2bc51fce
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-06-04 16:45:31 +0930
Commit message:
Commit: 082fa8bd77e91100b990c0677d5cf8bf2bc51fce
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-06-04 16:45:31 +0930
Commit message:
Merge pull request #343 from jaspitzer/master fixed wrong output on PCA variance proportion of reduce_dimensions.R
Package: tidybulk
Commit: 67e0cdb462e6fe4d58656c983a0e6968add55f5b
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 14:32:56 +0300
Commit message:
Commit: 67e0cdb462e6fe4d58656c983a0e6968add55f5b
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 14:32:56 +0300
Commit message:
version update
Package: tidybulk
Commit: 035bb2d244ad1cbada63f6e8bf8808e8f2d95185
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 10:00:20 +0300
Commit message:
Commit: 035bb2d244ad1cbada63f6e8bf8808e8f2d95185
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-02 10:00:20 +0300
Commit message:
added test and improved legibility
Package: tidybulk
Commit: 43e0d69aa475e624ffe2d6c12197e9a36e802bb1
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-01 15:40:30 +0300
Commit message:
Commit: 43e0d69aa475e624ffe2d6c12197e9a36e802bb1
Author: Jasper Spitzer <97746217+jaspitzer@users.noreply.github.com>
Date: 2026-06-01 15:40:30 +0300
Commit message:
fixed wrong output on PCA variance proportion the `.`proportion here calls back to prcomp_obj, thus dividing by that instead of just the standard deviation, leading to a wrong result
Package: tidybulk
Commit: c78eabb1c8b0181039e314d5285f9b8684b6eea8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 20:18:34 +1030
Commit message:
Commit: c78eabb1c8b0181039e314d5285f9b8684b6eea8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 20:18:34 +1030
Commit message:
Merge pull request #340 from tidyomics/force_abundance_column_to_reduce_dimensions Force abundance column to reduce dimensions
Package: tidybulk
Commit: 55cbd99be0cce9f0b672c5ec266c0e29d67f955c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:23:26 +1030
Commit message:
Commit: 55cbd99be0cce9f0b672c5ec266c0e29d67f955c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:23:26 +1030
Commit message:
Revise author and maintainer details Updated author and maintainer information in DESCRIPTION file.
Package: tidybulk
Commit: 567906bfd3b4ce6ab4d58592e613705acd4dc2b5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:19:42 +1030
Commit message:
Commit: 567906bfd3b4ce6ab4d58592e613705acd4dc2b5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:19:42 +1030
Commit message:
update the dev script accordingly
Package: tidybulk
Commit: 01aa7c3a3fb33592531782ce02a77688992f9d51
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:19:16 +1030
Commit message:
Commit: 01aa7c3a3fb33592531782ce02a77688992f9d51
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 14:19:16 +1030
Commit message:
Refactor reduce_dimensions to require explicit assay parameter instead of .abundance. Update documentation, examples, and tests accordingly to reflect this breaking change.
Package: tidybulk
Commit: 7ef0df3146eab3ae9292a1c748baa6bd3e138d52
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 13:25:16 +1030
Commit message:
Commit: 7ef0df3146eab3ae9292a1c748baa6bd3e138d52
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-04-02 13:25:16 +1030
Commit message:
RRequire explicit .abundance parameter for input, and adjust related examples and tests accordingly.
Package: betterChromVAR
Commit: 051b3164cc610c6c73b24673e34becc6ee155875
Author: plger <pl.germain@gmail.com>
Date: 2026-08-21 14:02:15 +0200
Commit message:
Commit: 051b3164cc610c6c73b24673e34becc6ee155875
Author: plger <pl.germain@gmail.com>
Date: 2026-08-21 14:02:15 +0200
Commit message:
Fixed bug that some SE-like objects were not recognized as such
Package: betterChromVAR
Commit: b334887064f7460a89bd52f689d196ae40f83cc3
Author: plger <pl.germain@gmail.com>
Date: 2026-08-14 12:37:06 +0200
Commit message:
Commit: b334887064f7460a89bd52f689d196ae40f83cc3
Author: plger <pl.germain@gmail.com>
Date: 2026-08-14 12:37:06 +0200
Commit message:
updated news
Package: smartid
Commit: 95826c008bee79bb24d6f591fb0c84257d3572bd
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 18:53:38 +1000
Commit message:
Commit: 95826c008bee79bb24d6f591fb0c84257d3572bd
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 18:53:38 +1000
Commit message:
version bump
Package: smartid
Commit: d3b479c9d12746184f25defbdfb5fa45986d0c34
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 18:43:19 +1000
Commit message:
Commit: d3b479c9d12746184f25defbdfb5fa45986d0c34
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 18:43:19 +1000
Commit message:
Optimize transform and scale, improve efficiency.
Package: spatialFDA
Commit: 0a191f40c488ed4bd259f81815aa156dfb487389
Author: mjemons <martin.emons@gmail.com>
Date: 2026-08-21 10:38:36 +0200
Commit message:
Commit: 0a191f40c488ed4bd259f81815aa156dfb487389
Author: mjemons <martin.emons@gmail.com>
Date: 2026-08-21 10:38:36 +0200
Commit message:
merged bioc version
Package: spatialFDA
Commit: 36d4f26fb05087dc2f6064793bd9abbd3901ed81
Author: Martin Emons <55688661+mjemons@users.noreply.github.com>
Date: 2026-08-21 10:04:37 +0200
Commit message:
Commit: 36d4f26fb05087dc2f6064793bd9abbd3901ed81
Author: Martin Emons <55688661+mjemons@users.noreply.github.com>
Date: 2026-08-21 10:04:37 +0200
Commit message:
Fix review (#24) * bug fix in metric plots * implemented proportion covariate plus small fixed * updated intensity adjustement * fixing error when selection is numerical * new defaults for G/F functions for intensity adjustment * bug fix for fixed effects models * bug fix * version bump and adjustements to vignette
Package: smartid
Commit: 16a54b0f6c92415a8ac92f53eb835e368845983a
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 15:28:04 +1000
Commit message:
Commit: 16a54b0f6c92415a8ac92f53eb835e368845983a
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 15:28:04 +1000
Commit message:
version bump
Package: smartid
Commit: 810530d72ee0098aa6e49a01b31cc31287a759d8
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 15:03:47 +1000
Commit message:
Commit: 810530d72ee0098aa6e49a01b31cc31287a759d8
Author: Gene233 <chen_jj97@163.com>
Date: 2026-08-21 15:03:47 +1000
Commit message:
Update iae and other functions to allow sparse matrix input and fix some bugs.
Package: biocmake
Commit: b1fd350719f1b180706e4efa8ee3e04412315287
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 14:15:09 +1000
Commit message:
Commit: b1fd350719f1b180706e4efa8ee3e04412315287
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2026-08-21 14:15:09 +1000
Commit message:
Upgraded the expected and downloaded versions of Cmake.
Package: TADCompare
Commit: f832eb378b46d0bc00c5a5126e722de44acbdb47
Author: Mikhail Dozmorov <mdozmorov@users.noreply.github.com>
Date: 2026-08-20 21:31:34 -0400
Commit message:
Commit: f832eb378b46d0bc00c5a5126e722de44acbdb47
Author: Mikhail Dozmorov <mdozmorov@users.noreply.github.com>
Date: 2026-08-20 21:31:34 -0400
Commit message:
Remove residual PRIMME references Co-authored-by: Copilot <223556219+Copilot@users.noreply.github.com>
Package: SpectralTAD
Commit: 6c2c88c8ebb308457144e61a94c72d22091dc29f
Author: Mikhail Dozmorov <mdozmorov@users.noreply.github.com>
Date: 2026-08-20 21:27:44 -0400
Commit message:
Commit: 6c2c88c8ebb308457144e61a94c72d22091dc29f
Author: Mikhail Dozmorov <mdozmorov@users.noreply.github.com>
Date: 2026-08-20 21:27:44 -0400
Commit message:
Remove stale PRIMME references Co-authored-by: Copilot <223556219+Copilot@users.noreply.github.com>
Package: DelayedArray
Commit: 79633d1afe95e97ad82ff0c52738c0bc5cbd0006
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 17:57:29 -0700
Commit message:
Commit: 79633d1afe95e97ad82ff0c52738c0bc5cbd0006
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 17:57:29 -0700
Commit message:
add a couple of missing Rd \link{} targets package anchors
Package: HDF5Array
Commit: 0103beca727b0274d430375bcde685017d2688ab
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 17:49:45 -0700
Commit message:
Commit: 0103beca727b0274d430375bcde685017d2688ab
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 17:49:45 -0700
Commit message:
add a few more missing Rd \link{} targets package anchors
Package: HDF5Array
Commit: a482c3efc636e93ffdd5f4bdc1609c8e06d074a9
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:28:39 -0700
Commit message:
Commit: a482c3efc636e93ffdd5f4bdc1609c8e06d074a9
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:28:39 -0700
Commit message:
HDF5Array 1.41.3: Small tweak to writeHDF5Array() and writeTENxMatrix() As per rhdf5's recommendation (starting with version 2.57.10), writeHDF5Array() and writeTENxMatrix() now use a variable-length string dataset instead of a fixed-size string dataset when the array- or matrix-like object to write is of type() character.
Package: h5mread
Commit: 6d72e634258051aa7bd2ea303e7418d2810301cf
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 16:02:45 -0700
Commit message:
Commit: 6d72e634258051aa7bd2ea303e7418d2810301cf
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 16:02:45 -0700
Commit message:
more testing of h5mread() on H5T_STRING datasets
Package: singIST
Commit: cbb3f3c929898165fe90f9a2e1c158a7430d0941
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-21 00:27:50 +0200
Commit message:
Commit: cbb3f3c929898165fe90f9a2e1c158a7430d0941
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-21 00:27:50 +0200
Commit message:
v1.1.2: Reviewer 2 round-2 response (orthology_cache, informative errors, dontrun examples, vignette reproducibility)
Package: h5mread
Commit: 87a30349ae714a0d9b974cc14940787eaacbd167
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:50:32 -0700
Commit message:
Commit: 87a30349ae714a0d9b974cc14940787eaacbd167
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:50:32 -0700
Commit message:
no tabs in R code
Package: h5mread
Commit: f9d9e69d09106a8477e4ad6101336668b4a9228d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:20:26 -0700
Commit message:
Commit: f9d9e69d09106a8477e4ad6101336668b4a9228d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 14:20:26 -0700
Commit message:
add comment
Package: h5mread
Commit: 2e8c551364e92dc361330c50e44e8571f8af56d0
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 13:02:49 -0700
Commit message:
Commit: 2e8c551364e92dc361330c50e44e8571f8af56d0
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 13:02:49 -0700
Commit message:
h5mread 1.5.2: Fix h5mread() on H5T_VARIABLE dataset with NULL pointers Starting with rhdf5 2.57.10, NULL pointers in an H5T_VARIABLE dataset are interpreted as NAs. So h5mread() now: - works on an H5T_VARIABLE dataset with NULL pointers (used to crash!); - interprets NULL pointers as NAs like rhdf5::h5read() does. Also, the meaning of HDF5 attribute "rhdf5-NA.OK" is not what I thought it was. In particular, it doesn't seem to have anything to do with how "NA" strings should be treated. So this commit drops all the C code that I added in commit 35698d094f521c9fffcc1377793c1a020e0fc580 to handle this attribute.
Package: S4Vectors
Commit: fc819a547a51d682f7788ae16a42c26840b1ed2f
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 11:08:32 -0700
Commit message:
Commit: fc819a547a51d682f7788ae16a42c26840b1ed2f
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-20 11:08:32 -0700
Commit message:
S4Vectors 0.51.7: C level utility _new_CHARACTER_from_CharAEAE() now handles NAs
Package: bsseq
Commit: 449fdcbff7f0c551534faa34e0318c46ee21bc8e
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-20 13:59:49 -0400
Commit message:
Commit: 449fdcbff7f0c551534faa34e0318c46ee21bc8e
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-20 13:59:49 -0400
Commit message:
documentation fixes
Package: bsseq
Commit: bebb72aa57fd12510d93abf1c0467ccaa6504e68
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-20 10:05:33 -0400
Commit message:
Commit: bebb72aa57fd12510d93abf1c0467ccaa6504e68
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-20 10:05:33 -0400
Commit message:
Merging from Github into Bioconductor devel; bumping version to 1.49.1
Package: bsseq
Commit: 62693020723f4842624eee8a796ca2c895b949e1
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 14:38:03 -0400
Commit message:
Commit: 62693020723f4842624eee8a796ca2c895b949e1
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 14:38:03 -0400
Commit message:
Merge pull request #156 from SrenBlikdal/devel Add user guide and test data focusing on import and filtering of longread data.
Package: bsseq
Commit: 6205c89830b2cc52fccf8797c83f4b35e43651bf
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-18 11:09:17 +0200
Commit message:
Commit: 6205c89830b2cc52fccf8797c83f4b35e43651bf
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-18 11:09:17 +0200
Commit message:
minor edits to the longread user guide
Package: bsseq
Commit: 81156dc97da09826f78be9af09838207df8e6cb9
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 16:24:05 +0200
Commit message:
Commit: 81156dc97da09826f78be9af09838207df8e6cb9
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 16:24:05 +0200
Commit message:
Add tidyverse to DESCRIPTION for longread user guide
Package: bsseq
Commit: b17064b1884277c6c560d0f9af9f4151736662ed
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 15:46:18 +0200
Commit message:
Commit: b17064b1884277c6c560d0f9af9f4151736662ed
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 15:46:18 +0200
Commit message:
Add bsseq:: to combine function in vignettes/bsseq.Rmd to avoid dplyr linked error
Package: bsseq
Commit: 0376b523557ed023c786c45ab304eb2caf62b190
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:29:06 +0200
Commit message:
Commit: 0376b523557ed023c786c45ab304eb2caf62b190
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:29:06 +0200
Commit message:
Addition to add hdf5 chunk to user guide add both data and guide
Package: bsseq
Commit: 9d32d8398ca2ffa377ff8f80f491ef70ad1d007e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:27:01 +0200
Commit message:
Commit: 9d32d8398ca2ffa377ff8f80f491ef70ad1d007e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:27:01 +0200
Commit message:
add hdf5 chunk to user guide
Package: bsseq
Commit: aef733fe4f83fe2b72e64538083238ba0c983044
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:15:28 +0200
Commit message:
Commit: aef733fe4f83fe2b72e64538083238ba0c983044
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:15:28 +0200
Commit message:
Bump version to 1.47.7
Package: bsseq
Commit: 1dbde36b694640f35622e210c43af7ddc4c1610e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:14:34 +0200
Commit message:
Commit: 1dbde36b694640f35622e210c43af7ddc4c1610e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-08-17 14:14:34 +0200
Commit message:
Add user guide and test data for long-read methylation analysis
Package: bsseq
Commit: b5f6a00a42268468474d8547dff9da3b3b91a0db
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-02-06 17:02:52 -0500
Commit message:
Commit: b5f6a00a42268468474d8547dff9da3b3b91a0db
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-02-06 17:02:52 -0500
Commit message:
Update DESCRIPTION Fixed version numbering
Package: bsseq
Commit: aef3c641f439c5aa1181a8f4ace8dc1e84d033f9
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-02-06 16:59:57 -0500
Commit message:
Commit: aef3c641f439c5aa1181a8f4ace8dc1e84d033f9
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-02-06 16:59:57 -0500
Commit message:
Merge pull request #155 from SrenBlikdal/devel Update read.bedMethyl() and alpha version of implementation for working with 5hmC and 5mC in bsseq()
Package: bsseq
Commit: 575074234cd955fac90796b96e3eedd4d24fe886
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-04 13:40:28 +0100
Commit message:
Commit: 575074234cd955fac90796b96e3eedd4d24fe886
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-04 13:40:28 +0100
Commit message:
Fix small typo in bsseq.bib
Package: bsseq
Commit: 00d786e274454a8f80748372e2053d7ae0949f06
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-03 09:14:20 +0100
Commit message:
Commit: 00d786e274454a8f80748372e2053d7ae0949f06
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-03 09:14:20 +0100
Commit message:
Merge remote-tracking branch 'upstream/devel' into devel
Package: bsseq
Commit: 924aadf1ca2dedee884d596e949776448d1b989e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-03 08:57:27 +0100
Commit message:
Commit: 924aadf1ca2dedee884d596e949776448d1b989e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-02-03 08:57:27 +0100
Commit message:
add MethylCount as input option from BSseq constuctor function and include modtype in the print info of the class
Package: bsseq
Commit: b6708547e4e0750f53e7cd9fcc78411a36a0fd59
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-30 12:53:10 -0500
Commit message:
Commit: b6708547e4e0750f53e7cd9fcc78411a36a0fd59
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-30 12:53:10 -0500
Commit message:
fixing typo
Package: bsseq
Commit: 2c0011b1c8a2c0461f3539dc33eccd8936f4d307
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-30 11:29:16 -0500
Commit message:
Commit: 2c0011b1c8a2c0461f3539dc33eccd8936f4d307
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-30 11:29:16 -0500
Commit message:
update to local.correct
Package: bsseq
Commit: dca8ac24a8079fa98b2f21c516d8d2f15c070b6c
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-30 09:06:32 +0100
Commit message:
Commit: dca8ac24a8079fa98b2f21c516d8d2f15c070b6c
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-30 09:06:32 +0100
Commit message:
add vingnettes with references to folder and add MethylCount as input for BSseq constructor function
Package: bsseq
Commit: 7ca8dfb23d2b2c07919841a25d78bf081ff6118b
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-20 16:05:16 +0100
Commit message:
Commit: 7ca8dfb23d2b2c07919841a25d78bf081ff6118b
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-20 16:05:16 +0100
Commit message:
quick fix bug caused Cov being DelayedMatrix object when MethylCount is read as hdf5
Package: bsseq
Commit: 2885cb6ff9d99e8ce71272dce5209eca0da45b3c
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-20 11:16:38 +0100
Commit message:
Commit: 2885cb6ff9d99e8ce71272dce5209eca0da45b3c
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-20 11:16:38 +0100
Commit message:
remove rmZeroCov from read.bedMethyl and update documentation
Package: bsseq
Commit: 16025c765f134759f5f7cafcf128e5979778c94b
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-19 15:26:10 +0100
Commit message:
Commit: 16025c765f134759f5f7cafcf128e5979778c94b
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-19 15:26:10 +0100
Commit message:
add #inline annotation to read.bedMethyl
Package: bsseq
Commit: ee751e0c497d46b9957584fe459d01e00e23e82e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-13 16:28:42 +0100
Commit message:
Commit: ee751e0c497d46b9957584fe459d01e00e23e82e
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-13 16:28:42 +0100
Commit message:
include check of bedMethylfiles in read.bedMethyl and small improvements of the man files.
Package: bsseq
Commit: 69ab7250dd91b0de26021c302a102cb6b6caf229
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-13 13:07:49 +0100
Commit message:
Commit: 69ab7250dd91b0de26021c302a102cb6b6caf229
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-13 13:07:49 +0100
Commit message:
Add function (check_bedMethyl) to validate input for read.bedMethyl(). Adjust text in MethylCounts-class.Rd to fit the imported matrixes. nd version bumb
Package: bsseq
Commit: 1e2ec767b2a3f0dc25f5177147d0096d7aef7749
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-06 12:57:58 +0100
Commit message:
Commit: 1e2ec767b2a3f0dc25f5177147d0096d7aef7749
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2026-01-06 12:57:58 +0100
Commit message:
Update functions and manuals to use MethylCounts object, shift the positions in the object by 1 but double check if it is inline with GRranges format
Package: bsseq
Commit: e8148fcbfd082ca3097f95c62dc883ea9985f483
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:26:37 -0500
Commit message:
Commit: e8148fcbfd082ca3097f95c62dc883ea9985f483
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:26:37 -0500
Commit message:
small fix to previous commit
Package: bsseq
Commit: fb13ec654d1765819f59043fc9d21f60e50d4536
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:19:39 -0500
Commit message:
Commit: fb13ec654d1765819f59043fc9d21f60e50d4536
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:19:39 -0500
Commit message:
small fix to previous commit
Package: bsseq
Commit: 6e9c305014f649172b842440ad95c0fbe6fac853
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:11:56 -0500
Commit message:
Commit: 6e9c305014f649172b842440ad95c0fbe6fac853
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-01-14 16:11:56 -0500
Commit message:
fixing an issue with local.correct=TRUE reported by Luke Morina
Package: bsseq
Commit: 57e4072ec537b1960b47fa8133b3dfbb435cff50
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 15:19:56 -0500
Commit message:
Commit: 57e4072ec537b1960b47fa8133b3dfbb435cff50
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 15:19:56 -0500
Commit message:
Adding the MethylCounts-class man page
Package: bsseq
Commit: 62223153c3ac408c61d61d25e747c8e98f1024c4
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 15:02:44 -0500
Commit message:
Commit: 62223153c3ac408c61d61d25e747c8e98f1024c4
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 15:02:44 -0500
Commit message:
adding documentation to MethylCounts and friends
Package: bsseq
Commit: 67ad2e8786e71ca05c90f9777affee159d838ae3
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 09:53:20 -0500
Commit message:
Commit: 67ad2e8786e71ca05c90f9777affee159d838ae3
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-19 09:53:20 -0500
Commit message:
Merge pull request #154 from SrenBlikdal/devel Adapt likelihood functions to MethylCounts and update test, manuals, and examples (alpha version).
Package: bsseq
Commit: dc9f3a3d53df54372e6de363e73a6ae059265a42
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-10 10:51:20 +0100
Commit message:
Commit: dc9f3a3d53df54372e6de363e73a6ae059265a42
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-10 10:51:20 +0100
Commit message:
Merge branch 'devel' of https://github.com/hansenlab/bsseq into devel Merge Kaspers update to workflows with Srens updates to likelihood functions
Package: bsseq
Commit: 0deb59a534fea197eb921c1540eba67dcb375c80
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-10 10:34:29 +0100
Commit message:
Commit: 0deb59a534fea197eb921c1540eba67dcb375c80
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-10 10:34:29 +0100
Commit message:
Update examples in likelihood man files to use MethylCounts instead of bsseq
Package: bsseq
Commit: 72bbcf01309551fc5e4ad4afb258cdc3111aea5c
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-07 17:04:29 -0500
Commit message:
Commit: 72bbcf01309551fc5e4ad4afb258cdc3111aea5c
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-07 17:04:29 -0500
Commit message:
updating github actions for devel
Package: bsseq
Commit: 3dbb6e161a943ede0205d1f3bf3bb3b1b092da92
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-07 16:19:27 -0500
Commit message:
Commit: 3dbb6e161a943ede0205d1f3bf3bb3b1b092da92
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-07 16:19:27 -0500
Commit message:
updating github actions
Package: bsseq
Commit: f44291786ae21b09be9f0d2ef67e31e4028fc5e7
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:19:04 +0100
Commit message:
Commit: f44291786ae21b09be9f0d2ef67e31e4028fc5e7
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:19:04 +0100
Commit message:
add test for likelihood_function for MethylCounts
Package: bsseq
Commit: a81676aaca3aa2d711b53d4769725b015a669961
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:05:27 +0100
Commit message:
Commit: a81676aaca3aa2d711b53d4769725b015a669961
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:05:27 +0100
Commit message:
increase the number of tests for read.bedMethyl and test MethylCount output. fix typo
Package: bsseq
Commit: ff7c1031fd1ad5aa40973c2356c82cfc5ba9d539
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:02:49 +0100
Commit message:
Commit: ff7c1031fd1ad5aa40973c2356c82cfc5ba9d539
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-07 11:02:49 +0100
Commit message:
increase the number of tests for read.bedMethyl and test MethylCount output.
Package: bsseq
Commit: b300f257b17983b3e20d597f3243e6cb61e135b7
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-06 15:45:34 +0100
Commit message:
Commit: b300f257b17983b3e20d597f3243e6cb61e135b7
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-06 15:45:34 +0100
Commit message:
merge changes from hansen lab into fork
Package: bsseq
Commit: cdd2786fc32ee1dcf0db4276d8545075a5222794
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-06 15:34:34 +0100
Commit message:
Commit: cdd2786fc32ee1dcf0db4276d8545075a5222794
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-06 15:34:34 +0100
Commit message:
Add type=Cov to getMethylCounts and adjust likelihood functions to U for unmethylated
Package: bsseq
Commit: afe12e5ec780a012313bed565495338a708a1c89
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-04 15:00:56 -0500
Commit message:
Commit: afe12e5ec780a012313bed565495338a708a1c89
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-11-04 15:00:56 -0500
Commit message:
Merge pull request #153 from SrenBlikdal/devel Fix read.bedMethyl when strandCollapse=F and add alpha version of read.bedMethyl for output="MethylCounts"
Package: bsseq
Commit: c734a5cc949ad72d3c3047f1cbbef1d950001657
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 15:13:21 +0100
Commit message:
Commit: c734a5cc949ad72d3c3047f1cbbef1d950001657
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 15:13:21 +0100
Commit message:
Fix MethylCount/MethylCounts typo
Package: bsseq
Commit: 3d20b1ebc01fc3ae2636e8f95a71edb70bf6e055
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 14:17:04 +0100
Commit message:
Commit: 3d20b1ebc01fc3ae2636e8f95a71edb70bf6e055
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 14:17:04 +0100
Commit message:
version bump
Package: bsseq
Commit: 3a0c50260d9f01814e44c6a226eb7eacc8aedb6d
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 14:08:17 +0100
Commit message:
Commit: 3a0c50260d9f01814e44c6a226eb7eacc8aedb6d
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 14:08:17 +0100
Commit message:
add alpha version of read.bedMethyl which can output MethylCount object. Default is still a BSseq object and is not modified in this commit
Package: bsseq
Commit: e6f80196cdfd971c7c65199c1dfb5e05960841ed
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 11:49:36 +0100
Commit message:
Commit: e6f80196cdfd971c7c65199c1dfb5e05960841ed
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 11:49:36 +0100
Commit message:
Change C for canonincal to U for unmethylated in R/read.bedMethyl
Package: bsseq
Commit: 4c0d982a82b16669e43b69299803f26ed246b345
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 11:37:13 +0100
Commit message:
Commit: 4c0d982a82b16669e43b69299803f26ed246b345
Author: SrenBlikdal <vrt191@alumni.ku.dk>
Date: 2025-11-04 11:37:13 +0100
Commit message:
Update R/read.bedMethyl.R from SrenBlikdal/MOD-lik-update to fix strandCollapse = F bug
Package: bsseq
Commit: 1fd8a4663d795de9dfe5f4f6f7664c0739e14c85
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 11:32:22 -0400
Commit message:
Commit: 1fd8a4663d795de9dfe5f4f6f7664c0739e14c85
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 11:32:22 -0400
Commit message:
adding alpha version of MethylCounts
Package: bsseq
Commit: 07bb0bbdc83498fd3883d067fc2f108b79ad5b00
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 11:05:10 -0400
Commit message:
Commit: 07bb0bbdc83498fd3883d067fc2f108b79ad5b00
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 11:05:10 -0400
Commit message:
merghing methylcount
Package: bsseq
Commit: dedca66cb8df350a99b616b774338c0800037d1a
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 09:57:36 -0400
Commit message:
Commit: dedca66cb8df350a99b616b774338c0800037d1a
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-31 09:57:36 -0400
Commit message:
Making strancCollapse compatible with MethylCounts
Package: bsseq
Commit: 4400127dd8b7c492509b028b180022690600c423
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-28 21:58:00 -0400
Commit message:
Commit: 4400127dd8b7c492509b028b180022690600c423
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-28 21:58:00 -0400
Commit message:
initial run of MethylCounts
Package: bsseq
Commit: 35e23db4535ce3dad674f3f5abd7d5aa9ba7a900
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-22 16:51:45 -0400
Commit message:
Commit: 35e23db4535ce3dad674f3f5abd7d5aa9ba7a900
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2025-10-22 16:51:45 -0400
Commit message:
initial work on MethylCounts
Package: Hiiragi2013
Commit: c989baa870904021f0f66b3e031dcd465aab1c9b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:02:40 +0200
Commit message:
Commit: c989baa870904021f0f66b3e031dcd465aab1c9b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:02:40 +0200
Commit message:
Bump version
Package: Hiiragi2013
Commit: 540f1e05bd2fcc35fdd569b946726fc0cba6fdac
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:02:24 +0200
Commit message:
Commit: 540f1e05bd2fcc35fdd569b946726fc0cba6fdac
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:02:24 +0200
Commit message:
Remove dependency on RColorBrewer
Package: HD2013SGI
Commit: 8f64c179a4f236b8474dd11237809d22c133d654
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:01:04 +0200
Commit message:
Commit: 8f64c179a4f236b8474dd11237809d22c133d654
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:01:04 +0200
Commit message:
Bump version
Package: HD2013SGI
Commit: 59c81daa15f617f139c7cc479a02062f47c7dd34
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:00:52 +0200
Commit message:
Commit: 59c81daa15f617f139c7cc479a02062f47c7dd34
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 14:00:52 +0200
Commit message:
Remove dependency on RColorBrewer
Package: splots
Commit: d360638bfc667dcba5997c0715fe951dbfef6af9
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 13:54:54 +0200
Commit message:
Commit: d360638bfc667dcba5997c0715fe951dbfef6af9
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 13:54:54 +0200
Commit message:
Bump version
Package: splots
Commit: d49b11207d2bd09b585deed5626a688de6f68453
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 13:54:29 +0200
Commit message:
Commit: d49b11207d2bd09b585deed5626a688de6f68453
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 13:54:29 +0200
Commit message:
Remove dependency on RColorBrewer
Package: splots
Commit: 22f0b3b41531b0b23e91ad639fb9f6ae53451f64
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-07-01 14:12:13 +0200
Commit message:
Commit: 22f0b3b41531b0b23e91ad639fb9f6ae53451f64
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-07-01 14:12:13 +0200
Commit message:
Bump version
Package: splots
Commit: 2d3b6bb7e9e94a38dcaf15935c0ed9559dc5480c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:54:01 +0200
Commit message:
Commit: 2d3b6bb7e9e94a38dcaf15935c0ed9559dc5480c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:54:01 +0200
Commit message:
Take into account data removal in HD2013SGI
Package: splots
Commit: 8466a13f50c4a3234231096f07c706b0a3dba026
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-07-01 14:12:01 +0200
Commit message:
Commit: 8466a13f50c4a3234231096f07c706b0a3dba026
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-07-01 14:12:01 +0200
Commit message:
Switch to Authors@R
Package: HD2013SGI
Commit: cb6725409dba3587cfce625764194553754e704c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:49:33 +0200
Commit message:
Commit: cb6725409dba3587cfce625764194553754e704c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:49:33 +0200
Commit message:
Bump version
Package: HD2013SGI
Commit: 91948df6c27a9ccf0e1058896301a0e0ec65e80f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:49:00 +0200
Commit message:
Commit: 91948df6c27a9ccf0e1058896301a0e0ec65e80f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-20 12:49:00 +0200
Commit message:
Update maintainer
Package: rhdf5
Commit: 7b58a7efee52e51efed6146189e78f8e9988f58f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 20:14:35 +0200
Commit message:
Commit: 7b58a7efee52e51efed6146189e78f8e9988f58f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 20:14:35 +0200
Commit message:
Reverse if / else
Package: rhdf5
Commit: 92f2f18251a1c8ac7adf58365a96ec9e05a7e3ca
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:56:44 +0200
Commit message:
Commit: 92f2f18251a1c8ac7adf58365a96ec9e05a7e3ca
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:56:44 +0200
Commit message:
Bump version
Package: rhdf5
Commit: e7eaa83a422b0c8cb8039308c32295bf727c9f94
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:56:21 +0200
Commit message:
Commit: e7eaa83a422b0c8cb8039308c32295bf727c9f94
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:56:21 +0200
Commit message:
Mention new ignored argument warning in NEWS
Package: rhdf5
Commit: 5d30005c19a46156f4a888e5c355f05a5d9b1318
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:34:04 +0200
Commit message:
Commit: 5d30005c19a46156f4a888e5c355f05a5d9b1318
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:34:04 +0200
Commit message:
Add warning for ignored arguments when dataset already exists
Package: rhdf5
Commit: c7f942325c9bfe8ded9d140c936bc3d98d6f0c08
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:33:37 +0200
Commit message:
Commit: c7f942325c9bfe8ded9d140c936bc3d98d6f0c08
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:33:37 +0200
Commit message:
Emit warning even if dataset was created beforehand
Package: rhdf5
Commit: ba5eaa600d814c1b31332ff2fef6f30fe5c32c76
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:22:59 +0200
Commit message:
Commit: ba5eaa600d814c1b31332ff2fef6f30fe5c32c76
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:22:59 +0200
Commit message:
Add test for NA_character_ in fixed-length strings created through h5createDataset()
Package: Rsubread
Commit: 89ba7feab4b160979d79d70167f3d2af7e09046c
Author: Yang Liao <yang.liao@onjcri.org.au>
Date: 2026-08-20 16:07:54 +1000
Commit message:
Commit: 89ba7feab4b160979d79d70167f3d2af7e09046c
Author: Yang Liao <yang.liao@onjcri.org.au>
Date: 2026-08-20 16:07:54 +1000
Commit message:
Skip overlapping transcript exon junctions
Package: tidySummarizedExperiment
Commit: 86922f96fe4733393e3775e8aeb94195eaa139ef
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 13:04:38 +0930
Commit message:
Commit: 86922f96fe4733393e3775e8aeb94195eaa139ef
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 13:04:38 +0930
Commit message:
update docs
Package: tidySummarizedExperiment
Commit: 8e7d11846711dc4de37c09d947158fbad7831b07
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 13:03:09 +0930
Commit message:
Commit: 8e7d11846711dc4de37c09d947158fbad7831b07
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 13:03:09 +0930
Commit message:
Merge pull request #121 from tidyomics/use-tidyprint Use tidyprint
Package: tidySummarizedExperiment
Commit: 60d4471e33099bcca4379e034805187da7bed5b9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 12:41:25 +0930
Commit message:
Commit: 60d4471e33099bcca4379e034805187da7bed5b9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 12:41:25 +0930
Commit message:
Merge branch 'use-tidyprint' of https://github.com/tidyomics/tidySummarizedExperiment into use-tidyprint
Package: tidySummarizedExperiment
Commit: 4108149f95e2820075fb1eab89b7edbb6bbbd48c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:52:51 +1030
Commit message:
Commit: 4108149f95e2820075fb1eab89b7edbb6bbbd48c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:52:51 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: c751d78232cf1c0b8cfdc36e72243572277e5025
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:59 +1030
Commit message:
Commit: c751d78232cf1c0b8cfdc36e72243572277e5025
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:59 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 06561fd11b53590d7c75cf92555bb3d447c4cd2e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:25 +1030
Commit message:
Commit: 06561fd11b53590d7c75cf92555bb3d447c4cd2e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:25 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 7b1f1e9a96f38641ff0c798a502982c16e86c546
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:16 +1030
Commit message:
Commit: 7b1f1e9a96f38641ff0c798a502982c16e86c546
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:16 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 7956bd5558854a55acf31a45da55a10f1d8c42f9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-13 17:05:47 +1030
Commit message:
Commit: 7956bd5558854a55acf31a45da55a10f1d8c42f9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-13 17:05:47 +1030
Commit message:
Enhance introduction vignette with tidyomics context and detailed tidy print options. Update GitHub installation link and add new references for the tidyomics ecosystem.
Package: tidySummarizedExperiment
Commit: 5dacc2a6ed7e6aea7eaf97aac149c10eae248eaf
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 14:27:19 +1030
Commit message:
Commit: 5dacc2a6ed7e6aea7eaf97aac149c10eae248eaf
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 14:27:19 +1030
Commit message:
Add tidy_print_off to vignette to prevent display issues with pasilla dataset
Package: tidySummarizedExperiment
Commit: d41f3cc56c91cd8a763e2151770d75576580029d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 13:51:44 +1030
Commit message:
Commit: d41f3cc56c91cd8a763e2151770d75576580029d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 13:51:44 +1030
Commit message:
Add tidy print functionality for SummarizedExperiment This commit introduces three new functions: tidy_print_on, tidy_print_off, and tidy_print_enabled, which allow users to enable or disable tidy printing for SummarizedExperiment objects. The NAMESPACE and documentation have been updated accordingly. Additionally, the tidy_warning and tidy_stop functions have been modified to utilize tidyprint for consistent message formatting.
Package: tidySummarizedExperiment
Commit: 1cacb81d9d91f1c5ab58d4f48499b94d127882a8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:54:31 +1030
Commit message:
Commit: 1cacb81d9d91f1c5ab58d4f48499b94d127882a8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:54:31 +1030
Commit message:
Update version to 1.20.4, add tidyprint dependency, and replace messages with tidy_message for improved consistency in user feedback. Enhance error handling in various functions to provide clearer guidance on usage and potential issues.
Package: tidySummarizedExperiment
Commit: 278b6703cf119ada5c36b47a53d0549bc897a1ea
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 12:15:25 +0930
Commit message:
Commit: 278b6703cf119ada5c36b47a53d0549bc897a1ea
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 12:15:25 +0930
Commit message:
Merge pull request #125 from tidyomics/copilot/fix-deprecated-when-warning Remove deprecated `when()` usage from dplyr methods
Package: tidySummarizedExperiment
Commit: 4ab4127a2be2f95b6b2880bcdb3223f01990c379
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-08-20 02:07:10 +0000
Commit message:
Commit: 4ab4127a2be2f95b6b2880bcdb3223f01990c379
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-08-20 02:07:10 +0000
Commit message:
Remove deprecated when usage Co-authored-by: stemangiola <7232890+stemangiola@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 88983babc7e0037301d812a97b2b306fd94f89ac
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-08-20 02:03:42 +0000
Commit message:
Commit: 88983babc7e0037301d812a97b2b306fd94f89ac
Author: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>
Date: 2026-08-20 02:03:42 +0000
Commit message:
Initial plan
Package: tidySummarizedExperiment
Commit: e05294334cbcb40e807753530ba4b091418478d8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:52:51 +1030
Commit message:
Commit: e05294334cbcb40e807753530ba4b091418478d8
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:52:51 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 4d71d40779796ceceffbaca036f9e3b7c71de129
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:59 +1030
Commit message:
Commit: 4d71d40779796ceceffbaca036f9e3b7c71de129
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:59 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: f82f4bc7cc6824b3112d7167d5f9f99fe6c87596
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:25 +1030
Commit message:
Commit: f82f4bc7cc6824b3112d7167d5f9f99fe6c87596
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:25 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 0335cabae7f83a928b7d78177a229e5f1fb726a4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:16 +1030
Commit message:
Commit: 0335cabae7f83a928b7d78177a229e5f1fb726a4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-17 13:51:16 +1030
Commit message:
Potential fix for pull request finding Co-authored-by: Copilot Autofix powered by AI <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 7d0f133f64e7f06450c50551559ff7ba7b82de1e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-13 17:05:47 +1030
Commit message:
Commit: 7d0f133f64e7f06450c50551559ff7ba7b82de1e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-13 17:05:47 +1030
Commit message:
Enhance introduction vignette with tidyomics context and detailed tidy print options. Update GitHub installation link and add new references for the tidyomics ecosystem.
Package: tidySummarizedExperiment
Commit: de3e4045ced7f0b3842e01450f1a0aba03071c29
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 14:27:19 +1030
Commit message:
Commit: de3e4045ced7f0b3842e01450f1a0aba03071c29
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 14:27:19 +1030
Commit message:
Add tidy_print_off to vignette to prevent display issues with pasilla dataset
Package: tidySummarizedExperiment
Commit: ca22843c0c2514f054e79bbdf4f1ec73f06bae21
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 13:51:44 +1030
Commit message:
Commit: ca22843c0c2514f054e79bbdf4f1ec73f06bae21
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-12 13:51:44 +1030
Commit message:
Add tidy print functionality for SummarizedExperiment This commit introduces three new functions: tidy_print_on, tidy_print_off, and tidy_print_enabled, which allow users to enable or disable tidy printing for SummarizedExperiment objects. The NAMESPACE and documentation have been updated accordingly. Additionally, the tidy_warning and tidy_stop functions have been modified to utilize tidyprint for consistent message formatting.
Package: tidySummarizedExperiment
Commit: d0aa78879a24679cd4d4ba8093a40d94adaae360
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:54:31 +1030
Commit message:
Commit: d0aa78879a24679cd4d4ba8093a40d94adaae360
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:54:31 +1030
Commit message:
Update version to 1.20.4, add tidyprint dependency, and replace messages with tidy_message for improved consistency in user feedback. Enhance error handling in various functions to provide clearer guidance on usage and potential issues.
Package: tidySummarizedExperiment
Commit: de9e00cec08848ec70417d856189f7cc370062af
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:39:50 +0930
Commit message:
Commit: de9e00cec08848ec70417d856189f7cc370062af
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:39:50 +0930
Commit message:
version UP
Package: tidySummarizedExperiment
Commit: 92b39bb4378a04b0d08ed6e7fd783be7328254fc
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:39:05 +0930
Commit message:
Commit: 92b39bb4378a04b0d08ed6e7fd783be7328254fc
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:39:05 +0930
Commit message:
version up to Bioc devel Merge branch 'devel' of git.bioconductor.org:packages/tidySummarizedExperiment # Conflicts: # DESCRIPTION
Package: tidySummarizedExperiment
Commit: 1f15a3abe12b03939cd32a6a82131195dabf96d5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:37:20 +0930
Commit message:
Commit: 1f15a3abe12b03939cd32a6a82131195dabf96d5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-08-20 11:37:20 +0930
Commit message:
update docs
Package: tidySummarizedExperiment
Commit: 0a030eeb51b838af9747b00effd84ff03a7c400a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:01:53 +1030
Commit message:
Commit: 0a030eeb51b838af9747b00effd84ff03a7c400a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 17:01:53 +1030
Commit message:
Merge pull request #119 from tidyomics/drop-when-function Refactor usage of `when` to `if` for improved readability and perform…
Package: tidySummarizedExperiment
Commit: 12a9e592790dbd29c3b09e2a86ae902cfd96411d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 16:16:13 +1030
Commit message:
Commit: 12a9e592790dbd29c3b09e2a86ae902cfd96411d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 16:16:13 +1030
Commit message:
Merge branch 'drop-when-function' of https://github.com/tidyomics/tidySummarizedExperiment into drop-when-function
Package: tidySummarizedExperiment
Commit: 4b655a301f86608adc854dadb3b4b69238220fa7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 13:36:11 +1030
Commit message:
Commit: 4b655a301f86608adc854dadb3b4b69238220fa7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 13:36:11 +1030
Commit message:
Refactor usage of `when` to `if` for improved readability and performance in various functions. Remove deprecated imports and enhance documentation for clarity. Update `NAMESPACE` to reflect changes in imported functions.
Package: tidySummarizedExperiment
Commit: 7b1a04cab35c842d925bf4ff2d1129e745fd8d59
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 16:14:41 +1030
Commit message:
Commit: 7b1a04cab35c842d925bf4ff2d1129e745fd8d59
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 16:14:41 +1030
Commit message:
Merge pull request #120 from tidyomics/fix-mutate-using-special-columns Fix mutate using special columns
Package: tidySummarizedExperiment
Commit: 70c00f6a217fa0f0345c8fa3639c1789d1dba541
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 15:06:19 +1030
Commit message:
Commit: 70c00f6a217fa0f0345c8fa3639c1789d1dba541
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 15:06:19 +1030
Commit message:
Update DESCRIPTION to include microbenchmark as an additional package suggestion.
Package: tidySummarizedExperiment
Commit: 3f81d7c6c55fecde399681f95ea02df780fd74b7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:35:45 +1030
Commit message:
Commit: 3f81d7c6c55fecde399681f95ea02df780fd74b7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:35:45 +1030
Commit message:
Update DESCRIPTION to include additional package suggestions: AnnotationDbi and org.Hs.eg.db.
Package: tidySummarizedExperiment
Commit: 1959be5fc9468ff757338a73ca84d74cff098f83
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:23:24 +1030
Commit message:
Commit: 1959be5fc9468ff757338a73ca84d74cff098f83
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:23:24 +1030
Commit message:
version UP
Package: tidySummarizedExperiment
Commit: cd76e8273691a9fe238bdf9560625cdc646eefd5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:21:39 +1030
Commit message:
Commit: cd76e8273691a9fe238bdf9560625cdc646eefd5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:21:39 +1030
Commit message:
Rename pivot.R to subset_data.R Made-with: Cursor
Package: tidySummarizedExperiment
Commit: b0fe76c17c5379f13dca4f8620e60cb37cca6077
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:21:10 +1030
Commit message:
Commit: b0fe76c17c5379f13dca4f8620e60cb37cca6077
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:21:10 +1030
Commit message:
change function name
Package: tidySummarizedExperiment
Commit: a037c222bbf0a035a47cdb42f496bb34bc80b2e5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:09:08 +1030
Commit message:
Commit: a037c222bbf0a035a47cdb42f496bb34bc80b2e5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 14:09:08 +1030
Commit message:
Add pivot_transcript and pivot_sample methods for SummarizedExperiment Introduce new methods to extract transcript-wise and sample-wise information from SummarizedExperiment objects. These methods facilitate downstream analysis by returning tibbles with relevant data. Update modify_features and modify_samples functions to utilize these new methods for improved data handling. Add tests to ensure correct functionality of analyze_query_scope_mutate with various scenarios.
Package: tidySummarizedExperiment
Commit: a19c245790a3b889a677887f5ffa1575f0d3e659
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 13:36:11 +1030
Commit message:
Commit: a19c245790a3b889a677887f5ffa1575f0d3e659
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2026-03-11 13:36:11 +1030
Commit message:
Refactor usage of `when` to `if` for improved readability and performance in various functions. Remove deprecated imports and enhance documentation for clarity. Update `NAMESPACE` to reflect changes in imported functions.
Package: tidySummarizedExperiment
Commit: 5627f7f5d56f47266df55d68fc27cdfc6a8c249d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 12:32:22 +1030
Commit message:
Commit: 5627f7f5d56f47266df55d68fc27cdfc6a8c249d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 12:32:22 +1030
Commit message:
Enhance dimnames consistency checks in check_se_dimnames, and add performance benchmarks for distinct function. Improve documentation and ensure proper handling of duplicated names in SummarizedExperiment.
Package: tidySummarizedExperiment
Commit: 13c3ed3025e04c08a6519bdad8666e5eba4603d2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 10:16:16 +1030
Commit message:
Commit: 13c3ed3025e04c08a6519bdad8666e5eba4603d2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 10:16:16 +1030
Commit message:
test mutate special columns
Package: tidySummarizedExperiment
Commit: 4590c4ecc8340514f1c8c4df2b6a06545ebffb93
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 10:14:01 +1030
Commit message:
Commit: 4590c4ecc8340514f1c8c4df2b6a06545ebffb93
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-12-22 10:14:01 +1030
Commit message:
trigger GitHub actions
Package: tidySummarizedExperiment
Commit: 6626935fb9a79ae087b7a5b244fd11b65ce52782
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-10 09:45:31 +1030
Commit message:
Commit: 6626935fb9a79ae087b7a5b244fd11b65ce52782
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-10 09:45:31 +1030
Commit message:
Merge branch 'RELEASE_3_22' of git.bioconductor.org:packages/tidySummarizedExperiment
Package: tidySummarizedExperiment
Commit: b2213baa29d93f2034d43715fba8d64addda1e6d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-10 09:43:45 +1030
Commit message:
Commit: b2213baa29d93f2034d43715fba8d64addda1e6d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-10 09:43:45 +1030
Commit message:
Merge pull request #114 from tidyomics/improve-startup-message-tidyprint Update startup message in zzz.R to use cli for improved formatting an…
Package: tidySummarizedExperiment
Commit: 42832c71a88fd9ea949d05a3b49b8bf058a6dea4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-07 16:57:37 +1030
Commit message:
Commit: 42832c71a88fd9ea949d05a3b49b8bf058a6dea4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-11-07 16:57:37 +1030
Commit message:
Update startup message in zzz.R to use cli for improved formatting and clarity.
Package: tidySummarizedExperiment
Commit: ef6f9cb3d77ec11dc79808aaf8cf4d680a45453e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:53:30 +1030
Commit message:
Commit: ef6f9cb3d77ec11dc79808aaf8cf4d680a45453e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:53:30 +1030
Commit message:
Merge pull request #112 from tidyomics/use-tidy-generics rely on generics tidy
Package: tidySummarizedExperiment
Commit: a19b80c58cbe14856e7d468727728bf7c70be6a2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:40:28 +1030
Commit message:
Commit: a19b80c58cbe14856e7d468727728bf7c70be6a2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:40:28 +1030
Commit message:
Remove 'object' parameter from documentation for tidy function to enhance clarity and maintain consistency with updated parameter naming.
Package: tidySummarizedExperiment
Commit: 95cf53539927609697324865fcebfecbd7656ec5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:36:17 +1030
Commit message:
Commit: 95cf53539927609697324865fcebfecbd7656ec5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 22:36:17 +1030
Commit message:
Refactor tidy_ function parameters from 'object' to 'x' for consistency and clarity; update documentation accordingly.
Package: tidySummarizedExperiment
Commit: 7d0366061950abe2cefe564f535c37d11cf48a7f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 21:39:08 +1030
Commit message:
Commit: 7d0366061950abe2cefe564f535c37d11cf48a7f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 21:39:08 +1030
Commit message:
Merge pull request #111 from tidyomics/fix-slice Fix slice
Package: tidySummarizedExperiment
Commit: 289e1ada088dd2090e8215f552e9606c25b34db7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 17:46:21 +1030
Commit message:
Commit: 289e1ada088dd2090e8215f552e9606c25b34db7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-29 17:46:21 +1030
Commit message:
rely on generics tidy
Package: tidySummarizedExperiment
Commit: cd62829b8289b53c69be684c2b83d1e9b278c3fa
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:37:29 +1030
Commit message:
Commit: cd62829b8289b53c69be684c2b83d1e9b278c3fa
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:37:29 +1030
Commit message:
Apply suggestion from @Copilot Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 59ad0686202f85d8efe75977252387314cf229fb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:37:19 +1030
Commit message:
Commit: 59ad0686202f85d8efe75977252387314cf229fb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:37:19 +1030
Commit message:
Apply suggestion from @Copilot Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: b54102956844cf615e01accb64766dbd0b516370
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:22:20 +1030
Commit message:
Commit: b54102956844cf615e01accb64766dbd0b516370
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:22:20 +1030
Commit message:
Update R/utilities.R Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 8d74d74aff4bfefdefb4c043a2f78b22d5ae4e01
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:22:13 +1030
Commit message:
Commit: 8d74d74aff4bfefdefb4c043a2f78b22d5ae4e01
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:22:13 +1030
Commit message:
Update R/utilities.R Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: tidySummarizedExperiment
Commit: 35be04b30393d83851611f4d2b4b314c0175cf9b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:20:12 +1030
Commit message:
Commit: 35be04b30393d83851611f4d2b4b314c0175cf9b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 16:20:12 +1030
Commit message:
fixed tests Refactor is_range_slice_ungrouped_detected function to accept .data as the first argument for improved clarity. Update corresponding tests to reflect argument order change and ensure correct functionality with various input scenarios.
Package: tidySummarizedExperiment
Commit: ecb1bf9eafac7df791dde456426442afdf1bc11f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:57:05 +1030
Commit message:
Commit: ecb1bf9eafac7df791dde456426442afdf1bc11f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:57:05 +1030
Commit message:
Update error message in slice_optimised function to clarify usage of .by parameter for range slices on ungrouped data.
Package: tidySummarizedExperiment
Commit: cda0453494a55e704bfd519edb37d83b21bd462e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:53:14 +1030
Commit message:
Commit: cda0453494a55e704bfd519edb37d83b21bd462e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:53:14 +1030
Commit message:
version UP
Package: tidySummarizedExperiment
Commit: c3c18c3325286f4f500653750b4a87ef7979e1a9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:52:52 +1030
Commit message:
Commit: c3c18c3325286f4f500653750b4a87ef7979e1a9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-10-25 15:52:52 +1030
Commit message:
Enhance slice functionality in SummarizedExperiment by adding .by parameter for grouping. Implement is_range_slice_ungrouped_detected to handle range slices on ungrouped data, with corresponding tests to ensure correct behavior. issue: https://github.com/tidyomics/tidySummarizedExperiment/issues/53
Package: DuckDBGRanges
Commit: 8b434a94cc4ff5b46d2c66efbe786f7c00ef6fb3
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 18:35:08 -0700
Commit message:
Commit: 8b434a94cc4ff5b46d2c66efbe786f7c00ef6fb3
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 18:35:08 -0700
Commit message:
feat: Add coverage() for DuckDBGRanges DuckDBGRanges had no coverage() method, so it inherited GenomicRanges's, which crashed with a C stack overflow via split(ranges(x), seqnames(x)) on a DuckDBDataFrame. Implement a real, lazy coverage() using the same delta-event/cumsum sweep-line pattern as disjoin()/gaps(), collecting only the compact breakpoint table and reconstructing a SimpleRleList. Supports shift/width; weight is scalar-only for now (mcols-column or per-range weights would need row-order alignment against a lazy table, left out rather than risk getting it wrong silently).
Package: nullranges
Commit: 5ac484cfca1ae0c4b2a87f737ae32b6c9cb99553
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:49:39 -0400
Commit message:
Commit: 5ac484cfca1ae0c4b2a87f737ae32b6c9cb99553
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:49:39 -0400
Commit message:
version bump
Package: nullranges
Commit: 370c2131edbcfe0aae2cc84d1ab42e8563b62bfe
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:49:24 -0400
Commit message:
Commit: 370c2131edbcfe0aae2cc84d1ab42e8563b62bfe
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:49:24 -0400
Commit message:
Merge branch 'devel' of git.bioconductor.org:packages/nullranges into devel
Package: nullranges
Commit: d7ff3bb8ef50397a9df54ad89853e7db539b5f0a
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-06 10:45:06 -0400
Commit message:
Commit: d7ff3bb8ef50397a9df54ad89853e7db539b5f0a
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-06 10:45:06 -0400
Commit message:
fix in devel for new exclude resources Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
Package: nullranges
Commit: 129e1bee8b63cd1e164d0015e18e326e8a198074
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-06 10:27:25 -0400
Commit message:
Commit: 129e1bee8b63cd1e164d0015e18e326e8a198074
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-06 10:27:25 -0400
Commit message:
try devel on GHA
Package: DelayedArray
Commit: 6850cefe66b6d953b15c79da830d3296a09d0e45
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:42:38 -0700
Commit message:
Commit: 6850cefe66b6d953b15c79da830d3296a09d0e45
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:42:38 -0700
Commit message:
DelayedArray 0.39.6: Fix code/documentation mismatch warning from 'R CMD check'
Package: rigvf
Commit: 21f794573b8730897cdd0bf1b249998b021e13c6
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:40:27 -0400
Commit message:
Commit: 21f794573b8730897cdd0bf1b249998b021e13c6
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-19 14:40:27 -0400
Commit message:
push to bioc, version bump
Package: rigvf
Commit: 4dfd40419d316ea7af52e4ff202d0528656d8c7d
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-17 11:14:39 -0400
Commit message:
Commit: 4dfd40419d316ea7af52e4ff202d0528656d8c7d
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-17 11:14:39 -0400
Commit message:
dealing with breaking changes from API
Package: rigvf
Commit: ae45d4a0e71d17cc776404073ae51f50a02955a7
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-17 10:22:33 -0400
Commit message:
Commit: ae45d4a0e71d17cc776404073ae51f50a02955a7
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-17 10:22:33 -0400
Commit message:
attempt fix
Package: rigvf
Commit: e292774dad9825a1c3636fd337416bbba698a04e
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-14 10:52:45 -0400
Commit message:
Commit: e292774dad9825a1c3636fd337416bbba698a04e
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-14 10:52:45 -0400
Commit message:
version bump
Package: rigvf
Commit: 02a9e7adb27f1be76fe0e8286e0dfe126c55c272
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-14 10:52:14 -0400
Commit message:
Commit: 02a9e7adb27f1be76fe0e8286e0dfe126c55c272
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-14 10:52:14 -0400
Commit message:
Merge branch 'devel' of git.bioconductor.org:packages/rigvf into devel
Package: rigvf
Commit: bbcc8a16dfd4a0c5de97b84dd290a41d6b74c68c
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-04 13:02:44 -0400
Commit message:
Commit: bbcc8a16dfd4a0c5de97b84dd290a41d6b74c68c
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-04 13:02:44 -0400
Commit message:
update pkgdown
Package: rigvf
Commit: 62a8adc18eb12a4ac62f2d2953681032392e7531
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-04 13:00:31 -0400
Commit message:
Commit: 62a8adc18eb12a4ac62f2d2953681032392e7531
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-04 13:00:31 -0400
Commit message:
font sizes
Package: rigvf
Commit: b6b5952345ce387ab0f9dff55a7d43784c9818d5
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-03 22:30:41 -0400
Commit message:
Commit: b6b5952345ce387ab0f9dff55a7d43784c9818d5
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-03 22:30:41 -0400
Commit message:
working on CLS lookup
Package: rigvf
Commit: a1d5ad23cb1c5f9787725b6e22a5a9abdac21e2f
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-03 21:03:11 -0400
Commit message:
Commit: a1d5ad23cb1c5f9787725b6e22a5a9abdac21e2f
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-08-03 21:03:11 -0400
Commit message:
working on data portal script
Package: rigvf
Commit: 3b86a14931120b6378b1640f5b4161642ee04490
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-06-24 14:48:18 -0400
Commit message:
Commit: 3b86a14931120b6378b1640f5b4161642ee04490
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-06-24 14:48:18 -0400
Commit message:
script to query the portal
Package: rigvf
Commit: 9e5c0a19d7c273db50d939366d5a3d2608a34f67
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-06-24 13:29:09 -0400
Commit message:
Commit: 9e5c0a19d7c273db50d939366d5a3d2608a34f67
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-06-24 13:29:09 -0400
Commit message:
add portal_files() to query IGVF Data Portal files by content type
Package: ZarrArray
Commit: 3b97f7e9783e90bad2f8af15fe4f672cdbf8f3c3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:39:11 -0700
Commit message:
Commit: 3b97f7e9783e90bad2f8af15fe4f672cdbf8f3c3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:39:11 -0700
Commit message:
ZarrArray 1.1.7: Fix code/documentation mismatch warning from 'R CMD check'
Package: ZarrArray
Commit: b00bd04af558c8fa2aae31ac1b8389b08ca02704
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:34:31 +0200
Commit message:
Commit: b00bd04af558c8fa2aae31ac1b8389b08ca02704
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 19:34:31 +0200
Commit message:
Add support for bfloat and enable more Rarr test cases (#13)
Package: HDF5Array
Commit: 83a904923ea5a72781e334d75ddcee963f92d11d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:36:46 -0700
Commit message:
Commit: 83a904923ea5a72781e334d75ddcee963f92d11d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 11:36:46 -0700
Commit message:
Address a couple of 'R CMD check' warnings/notes
Package: HD2013SGI
Commit: f97f05ee84bfb229cb3b0819c6a1341d3fec7929
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 10:35:15 +0200
Commit message:
Commit: f97f05ee84bfb229cb3b0819c6a1341d3fec7929
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 10:35:15 +0200
Commit message:
Update documentation
Package: HD2013SGI
Commit: d20bc809810b89af3eae6bcaebf94fc00dd65638
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 09:57:09 +0200
Commit message:
Commit: d20bc809810b89af3eae6bcaebf94fc00dd65638
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 09:57:09 +0200
Commit message:
Update data loading instructions in vignettes
Package: HD2013SGI
Commit: d997b4c183efa7a48102990b6c1a5628899cc8a4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 08:38:42 +0200
Commit message:
Commit: d997b4c183efa7a48102990b6c1a5628899cc8a4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 08:38:42 +0200
Commit message:
Add deprecation warnings to data files
Package: HD2013SGI
Commit: 6246306cb87b647f18845aea02d8d7f1ecf6db1c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:16:01 +0200
Commit message:
Commit: 6246306cb87b647f18845aea02d8d7f1ecf6db1c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:16:01 +0200
Commit message:
Improve performance a bit
Package: HD2013SGI
Commit: f52bde4864e239235a93b72ab2cae29afaef64a5
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:15:48 +0200
Commit message:
Commit: f52bde4864e239235a93b72ab2cae29afaef64a5
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:15:48 +0200
Commit message:
Convert data files to functions fetching data from zenodo
Package: HD2013SGI
Commit: 2ae24a143b1b448c7ef9aa781099ba1c82265323
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:33 -0400
Commit message:
Commit: 2ae24a143b1b448c7ef9aa781099ba1c82265323
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:33 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_23 branch
Package: HD2013SGI
Commit: 1e584be794dfa577eb8a1f0e4b8e7da3a883379b
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:33 -0400
Commit message:
Commit: 1e584be794dfa577eb8a1f0e4b8e7da3a883379b
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:33 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_23 branch
Package: HD2013SGI
Commit: 33e92c0ab30c3bcb688b8c46569cdb6b21d8808b
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:07 -0400
Commit message:
Commit: 33e92c0ab30c3bcb688b8c46569cdb6b21d8808b
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:07 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_22 branch
Package: HD2013SGI
Commit: 9e0ba9aa7e7ea099a6c4c2c7be8f15f9528298de
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:07 -0400
Commit message:
Commit: 9e0ba9aa7e7ea099a6c4c2c7be8f15f9528298de
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:07 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_22 branch
Package: HD2013SGI
Commit: 722c5d464ee2eda4cefce52b93fe5dfdd84b1d06
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:13 -0400
Commit message:
Commit: 722c5d464ee2eda4cefce52b93fe5dfdd84b1d06
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:13 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_21 branch
Package: HD2013SGI
Commit: e01a5979898f299d9eec5895f93c183f8a706b14
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:13 -0400
Commit message:
Commit: e01a5979898f299d9eec5895f93c183f8a706b14
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:13 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_21 branch
Package: HD2013SGI
Commit: def2e846ee2fdbac737122a554d8b6200ad1d02f
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:14 -0400
Commit message:
Commit: def2e846ee2fdbac737122a554d8b6200ad1d02f
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:14 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_20 branch
Package: HD2013SGI
Commit: e30cf69addac4af4837295990420bb276e7c9a13
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:14 -0400
Commit message:
Commit: e30cf69addac4af4837295990420bb276e7c9a13
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:14 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_20 branch
Package: HD2013SGI
Commit: bd4eaea04f31da79b2839e3d1eac80c333fa26b2
Author: Mike Smith <grimbough@gmail.com>
Date: 2024-06-29 02:13:50 +0200
Commit message:
Commit: bd4eaea04f31da79b2839e3d1eac80c333fa26b2
Author: Mike Smith <grimbough@gmail.com>
Date: 2024-06-29 02:13:50 +0200
Commit message:
Fix issues with colours in vignette
Package: HD2013SGI
Commit: b00a26cf3be0f8040af891de0a9b4dc9817a9e8a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:38:57 -0400
Commit message:
Commit: b00a26cf3be0f8040af891de0a9b4dc9817a9e8a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:38:57 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_19 branch
Package: HD2013SGI
Commit: f7eabe5aeda4a3eb34a944e0ca676bc0c07a7357
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:38:57 -0400
Commit message:
Commit: f7eabe5aeda4a3eb34a944e0ca676bc0c07a7357
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:38:57 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_19 branch
Package: HD2013SGI
Commit: 7121d585a34ebf417212a1836703b845a346dae3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:17 -0400
Commit message:
Commit: 7121d585a34ebf417212a1836703b845a346dae3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:17 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_18 branch
Package: HD2013SGI
Commit: cc326b5fa700c43d12373ad8b80245ccb1a8bc0c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:17 -0400
Commit message:
Commit: cc326b5fa700c43d12373ad8b80245ccb1a8bc0c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:17 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_18 branch
Package: HD2013SGI
Commit: 2200ac765429963025a648d8a7a7149afd50dd7a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:41 -0400
Commit message:
Commit: 2200ac765429963025a648d8a7a7149afd50dd7a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:41 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_17 branch
Package: HD2013SGI
Commit: c36858fdb4f1226c4914785d6a494485531cd61f
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:41 -0400
Commit message:
Commit: c36858fdb4f1226c4914785d6a494485531cd61f
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:41 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_17 branch
Package: HD2013SGI
Commit: 9d6b3881cd2c7d05b410e280a89d3d2e97f671aa
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:00 -0400
Commit message:
Commit: 9d6b3881cd2c7d05b410e280a89d3d2e97f671aa
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:00 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_16 branch
Package: HD2013SGI
Commit: b6114949bd78b0a1ef271cc326e135557ae6d31e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:00 -0400
Commit message:
Commit: b6114949bd78b0a1ef271cc326e135557ae6d31e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:00 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_16 branch
Package: HD2013SGI
Commit: 1d0e54838bf23e7a06c30e5478936bf3b4b28586
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:07:56 +0000
Commit message:
Commit: 1d0e54838bf23e7a06c30e5478936bf3b4b28586
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:07:56 +0000
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_15 branch
Package: HD2013SGI
Commit: b56ac16093d23063c2aa9d73333296d0c69e928f
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:07:56 +0000
Commit message:
Commit: b56ac16093d23063c2aa9d73333296d0c69e928f
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:07:56 +0000
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_15 branch
Package: HD2013SGI
Commit: e1ce458833c021563d37aba9ec112993d87a4958
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:06 -0400
Commit message:
Commit: e1ce458833c021563d37aba9ec112993d87a4958
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:06 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_14 branch
Package: HD2013SGI
Commit: 6fc6418fd4d9c1fe3338113d68407b69f8288a87
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:06 -0400
Commit message:
Commit: 6fc6418fd4d9c1fe3338113d68407b69f8288a87
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:06 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_14 branch
Package: HD2013SGI
Commit: a24e87a49acd655d248878e240e5d2477afc629b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:44 -0400
Commit message:
Commit: a24e87a49acd655d248878e240e5d2477afc629b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:44 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_13 branch
Package: HD2013SGI
Commit: 6bec64df896ab107d793c9967681b9061aa38c42
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:44 -0400
Commit message:
Commit: 6bec64df896ab107d793c9967681b9061aa38c42
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:44 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_13 branch
Package: HD2013SGI
Commit: 2426d986b2aeff18897d5d74c073bfc4ea6cdf93
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-05-06 16:38:03 +0200
Commit message:
Commit: 2426d986b2aeff18897d5d74c073bfc4ea6cdf93
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-05-06 16:38:03 +0200
Commit message:
update maintainer email
Package: HD2013SGI
Commit: 91593aae2bc91aa2fd518ce6e9b8d4851be827da
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:22 -0400
Commit message:
Commit: 91593aae2bc91aa2fd518ce6e9b8d4851be827da
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:22 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_12 branch
Package: HD2013SGI
Commit: 961027d30b33f1e140f1e8b21ac8c2bcd4a3454e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:22 -0400
Commit message:
Commit: 961027d30b33f1e140f1e8b21ac8c2bcd4a3454e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:22 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_12 branch
Package: HD2013SGI
Commit: af9968a7ed0046dcab1f08a48f52758634e03c16
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:22 -0400
Commit message:
Commit: af9968a7ed0046dcab1f08a48f52758634e03c16
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:22 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_11 branch
Package: HD2013SGI
Commit: d87f44b799e77078f8361fec786a89b2b45d0f76
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:22 -0400
Commit message:
Commit: d87f44b799e77078f8361fec786a89b2b45d0f76
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:22 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_11 branch
Package: HD2013SGI
Commit: d8043f11773c3716dc699cc901268aa787993613
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:37:01 -0400
Commit message:
Commit: d8043f11773c3716dc699cc901268aa787993613
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:37:01 -0400
Commit message:
bump x.y.z version to odd y after creation of RELEASE_3_10 branch
Package: HD2013SGI
Commit: 8fce63585245a00214c4cb1a08124f351e92820d
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:40 -0400
Commit message:
Commit: 8fce63585245a00214c4cb1a08124f351e92820d
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:40 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_10 branch
Package: HD2013SGI
Commit: 3c49a50a4dab57543964e798e4097a114eab5f54
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:18 -0400
Commit message:
Commit: 3c49a50a4dab57543964e798e4097a114eab5f54
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:18 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_9 branch
Package: HD2013SGI
Commit: 8d9e1abf37a2e1f8373cbf0a261f3db1bdf79e1b
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:32 -0400
Commit message:
Commit: 8d9e1abf37a2e1f8373cbf0a261f3db1bdf79e1b
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:32 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch
Package: HD2013SGI
Commit: 6cbe9bff4829c6d934105516e743a42e03946981
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
Commit: 6cbe9bff4829c6d934105516e743a42e03946981
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_8 branch
Package: HD2013SGI
Commit: 5cc0804cbd8b8d55efc76732334fac3da157b682
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:22 -0400
Commit message:
Commit: 5cc0804cbd8b8d55efc76732334fac3da157b682
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:22 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch
Package: HD2013SGI
Commit: 6cef6f084560bc61d61188d4ad4ea19be5a860a7
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2018-08-31 18:01:03 +0000
Commit message:
Commit: 6cef6f084560bc61d61188d4ad4ea19be5a860a7
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2018-08-31 18:01:03 +0000
Commit message:
replace BiocInstaller biocLite mentions with BiocManager
Package: HD2013SGI
Commit: 0ad66b97688a51e6d8641282ae843fd1d7ef4e61
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
Commit: 0ad66b97688a51e6d8641282ae843fd1d7ef4e61
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_7 branch
Package: HD2013SGI
Commit: cb7abe997dbee0dc6da6dc73868c6cb26bb891fb
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:27 -0400
Commit message:
Commit: cb7abe997dbee0dc6da6dc73868c6cb26bb891fb
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:27 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch
Package: HD2013SGI
Commit: 024cb0004101ec08bde1f0c12d653ad66cf2b505
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
Commit: 024cb0004101ec08bde1f0c12d653ad66cf2b505
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_6 branch
Package: HD2013SGI
Commit: 470c4eb3486607dbf348bd982f4c741f662a07af
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:25 -0400
Commit message:
Commit: 470c4eb3486607dbf348bd982f4c741f662a07af
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:25 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch
Package: davidTiling
Commit: c2d32bbb7c099dc50f5103c2967735d09cadbbd2
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:24:08 +0200
Commit message:
Commit: c2d32bbb7c099dc50f5103c2967735d09cadbbd2
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:24:08 +0200
Commit message:
Bump version
Package: davidTiling
Commit: 17ac26a806e4877795bceac8457744b6a84d6308
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:17:04 +0200
Commit message:
Commit: 17ac26a806e4877795bceac8457744b6a84d6308
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-18 22:17:04 +0200
Commit message:
Bump minimum required R version
Package: davidTiling
Commit: ff2baff1791467b09b71ac2df180bd0a7be8ffa4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:26:10 +0200
Commit message:
Commit: ff2baff1791467b09b71ac2df180bd0a7be8ffa4
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:26:10 +0200
Commit message:
Convert Author & Maintainer fields to Authors@R with updated email
Package: davidTiling
Commit: dd36c5db2f3b8b0b8e0cdcfadea0c5a4889b0338
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:23:47 +0200
Commit message:
Commit: dd36c5db2f3b8b0b8e0cdcfadea0c5a4889b0338
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:23:47 +0200
Commit message:
Document data removal in NEWS
Package: davidTiling
Commit: a674f5ae4a577423fc955b58b2b8ff15646d305b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 16:27:52 +0200
Commit message:
Commit: a674f5ae4a577423fc955b58b2b8ff15646d305b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 16:27:52 +0200
Commit message:
Run devtools::document()
Package: davidTiling
Commit: 46b6a21a56bc46523ce8342d17316ddfa7e6117f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 16:12:57 +0200
Commit message:
Commit: 46b6a21a56bc46523ce8342d17316ddfa7e6117f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 16:12:57 +0200
Commit message:
Add BuildResaveData: to avoid triggering promise
Package: davidTiling
Commit: a054d7bdd5574da1929ce43ef28af30eaf5f5a4f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:32:40 +0200
Commit message:
Commit: a054d7bdd5574da1929ce43ef28af30eaf5f5a4f
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-17 15:32:40 +0200
Commit message:
Add deprecation error in data("davidTiling")
Package: davidTiling
Commit: fa0daf27b898e71502af052830b5012a36d074a1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-14 17:21:19 +0200
Commit message:
Commit: fa0daf27b898e71502af052830b5012a36d074a1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-14 17:21:19 +0200
Commit message:
Convert dataTiling dataset to an R script
Package: davidTiling
Commit: 96545153662b19cece691f8f95f8b1cb931109f7
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:21:38 -0400
Commit message:
Commit: 96545153662b19cece691f8f95f8b1cb931109f7
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:21:38 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_23 branch
Package: davidTiling
Commit: 34b3c4ee510d3e98bdbdd2c75ce5cd14864ce583
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:21:38 -0400
Commit message:
Commit: 34b3c4ee510d3e98bdbdd2c75ce5cd14864ce583
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:21:38 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_23 branch
Package: davidTiling
Commit: 1ffa0bf79cbea2e3709883af928ac14cf1a1fd64
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:23:27 -0400
Commit message:
Commit: 1ffa0bf79cbea2e3709883af928ac14cf1a1fd64
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:23:27 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_22 branch
Package: davidTiling
Commit: 77d0ffe299d549af0390a27b6236476f7e034e57
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:23:27 -0400
Commit message:
Commit: 77d0ffe299d549af0390a27b6236476f7e034e57
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:23:27 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_22 branch
Package: davidTiling
Commit: c46e46722b09bdf097aa6348d044e883bdf42b0d
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:13:24 -0400
Commit message:
Commit: c46e46722b09bdf097aa6348d044e883bdf42b0d
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:13:24 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_21 branch
Package: davidTiling
Commit: 60cf608086614c1b1f50ee3f17fbda926a926cc1
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:13:24 -0400
Commit message:
Commit: 60cf608086614c1b1f50ee3f17fbda926a926cc1
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:13:24 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_21 branch
Package: davidTiling
Commit: 5dc4c86d99f87535ae2b2778e3828de9e91b3e25
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:25:04 -0400
Commit message:
Commit: 5dc4c86d99f87535ae2b2778e3828de9e91b3e25
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:25:04 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_20 branch
Package: davidTiling
Commit: ac286e063a4154b2d2693661f16f42b299e92946
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:25:04 -0400
Commit message:
Commit: ac286e063a4154b2d2693661f16f42b299e92946
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:25:04 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_20 branch
Package: davidTiling
Commit: f633422c87e7917d857652e558c9729305a787b8
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:26:40 -0400
Commit message:
Commit: f633422c87e7917d857652e558c9729305a787b8
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:26:40 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_19 branch
Package: davidTiling
Commit: e40314b88aa9e2bff883cf73908186830ad28562
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:26:40 -0400
Commit message:
Commit: e40314b88aa9e2bff883cf73908186830ad28562
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:26:40 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_19 branch
Package: davidTiling
Commit: 594f17a54fc8c45fafd2584941fcaf15b7e6634d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 08:53:28 -0400
Commit message:
Commit: 594f17a54fc8c45fafd2584941fcaf15b7e6634d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 08:53:28 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_18 branch
Package: davidTiling
Commit: 0afc895fc6b3dbe1076d1226880cfb1a0deb8d3d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 08:53:28 -0400
Commit message:
Commit: 0afc895fc6b3dbe1076d1226880cfb1a0deb8d3d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 08:53:28 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_18 branch
Package: davidTiling
Commit: dac8bbe1ef5eba01af5a10cf1b6d8a6c2b47405d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 09:49:15 -0400
Commit message:
Commit: dac8bbe1ef5eba01af5a10cf1b6d8a6c2b47405d
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 09:49:15 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_17 branch
Package: davidTiling
Commit: b8a489d6aa3c3e5e5842e91ae39dc0e574066d2c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 09:49:15 -0400
Commit message:
Commit: b8a489d6aa3c3e5e5842e91ae39dc0e574066d2c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 09:49:15 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_17 branch
Package: davidTiling
Commit: 8ec3ea647593a2ab31232d483b38cd2f105fb165
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:38:19 -0400
Commit message:
Commit: 8ec3ea647593a2ab31232d483b38cd2f105fb165
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:38:19 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_16 branch
Package: davidTiling
Commit: 9bd1bc35429026bce7090764996efee299c2d89c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:38:19 -0400
Commit message:
Commit: 9bd1bc35429026bce7090764996efee299c2d89c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:38:19 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_16 branch
Package: davidTiling
Commit: 9e3343f31a7a9906b21f0fe067246acbc96c839f
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 16:54:48 +0000
Commit message:
Commit: 9e3343f31a7a9906b21f0fe067246acbc96c839f
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 16:54:48 +0000
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_15 branch
Package: davidTiling
Commit: 129e3bfe99bbb17063e7d849f60664019a7be726
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 16:54:48 +0000
Commit message:
Commit: 129e3bfe99bbb17063e7d849f60664019a7be726
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 16:54:48 +0000
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_15 branch
Package: davidTiling
Commit: 1bfaac5dae2432fb709ef18b07d1532783a649d2
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:39:05 -0400
Commit message:
Commit: 1bfaac5dae2432fb709ef18b07d1532783a649d2
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:39:05 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_14 branch
Package: davidTiling
Commit: 14ec2538c547c5d416f98b77923e407365feea8b
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:39:05 -0400
Commit message:
Commit: 14ec2538c547c5d416f98b77923e407365feea8b
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:39:05 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_14 branch
Package: davidTiling
Commit: c05e0bfadfe57b21a800ada01715de9c2d4b5e22
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:23:36 -0400
Commit message:
Commit: c05e0bfadfe57b21a800ada01715de9c2d4b5e22
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:23:36 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_13 branch
Package: davidTiling
Commit: f6f8b9cdfe862c032dafbcca69fbfc9f47ca71f3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:23:36 -0400
Commit message:
Commit: f6f8b9cdfe862c032dafbcca69fbfc9f47ca71f3
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:23:36 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_13 branch
Package: davidTiling
Commit: 0eef93b35cfcd9d18c61d5b1bdf009383d1edc1b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 09:45:05 -0400
Commit message:
Commit: 0eef93b35cfcd9d18c61d5b1bdf009383d1edc1b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 09:45:05 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_12 branch
Package: davidTiling
Commit: aa8f8d70214e9c534c2050c777f82d7b82d8fb46
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 09:45:05 -0400
Commit message:
Commit: aa8f8d70214e9c534c2050c777f82d7b82d8fb46
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 09:45:05 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_12 branch
Package: davidTiling
Commit: 8733ae22db5cb1e87ed2d4c1bd3c9340b6d15ab8
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 14:52:44 -0400
Commit message:
Commit: 8733ae22db5cb1e87ed2d4c1bd3c9340b6d15ab8
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 14:52:44 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_11 branch
Package: davidTiling
Commit: 188c7c4febe052f48f01a0d216ee81c28a361054
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 14:52:44 -0400
Commit message:
Commit: 188c7c4febe052f48f01a0d216ee81c28a361054
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 14:52:44 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_11 branch
Package: davidTiling
Commit: 2faf2cb9c19836133d8e1306c9edf357832cc480
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:36:59 -0400
Commit message:
Commit: 2faf2cb9c19836133d8e1306c9edf357832cc480
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:36:59 -0400
Commit message:
bump x.y.z version to odd y after creation of RELEASE_3_10 branch
Package: davidTiling
Commit: d26f22540b48a498a7d353b1ecd2c4d0e61228de
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:33 -0400
Commit message:
Commit: d26f22540b48a498a7d353b1ecd2c4d0e61228de
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:33 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_10 branch
Package: davidTiling
Commit: abba5d83f976776edea0c6d15399d4f00ef4d482
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:10 -0400
Commit message:
Commit: abba5d83f976776edea0c6d15399d4f00ef4d482
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:10 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_9 branch
Package: davidTiling
Commit: a128836744c08cee9cbadd13b979f0243c92b9b9
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:14 -0400
Commit message:
Commit: a128836744c08cee9cbadd13b979f0243c92b9b9
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:14 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch
Package: davidTiling
Commit: b8bcefc82499e9499603010375dd0ed198f3c9e9
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
Commit: b8bcefc82499e9499603010375dd0ed198f3c9e9
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_8 branch
Package: davidTiling
Commit: 1c529b42bbb090d27ca66c94e2f40b68a7d158b3
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:20 -0400
Commit message:
Commit: 1c529b42bbb090d27ca66c94e2f40b68a7d158b3
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:20 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch
Package: davidTiling
Commit: 2907c4f5c8a92c3d95bfe74427275a5de0c24580
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
Commit: 2907c4f5c8a92c3d95bfe74427275a5de0c24580
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_7 branch
Package: davidTiling
Commit: f93554c9b87eeb95a8479b10b06511db7654fc7a
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:24 -0400
Commit message:
Commit: f93554c9b87eeb95a8479b10b06511db7654fc7a
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:24 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch
Package: davidTiling
Commit: 10f95573c75263531ec69dd63dacfe29d2112a32
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
Commit: 10f95573c75263531ec69dd63dacfe29d2112a32
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_6 branch
Package: davidTiling
Commit: 0fae20151fb6d14885538593d99678e229003fd2
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:21 -0400
Commit message:
Commit: 0fae20151fb6d14885538593d99678e229003fd2
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:21 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch
Package: davidTiling
Commit: cf565e2f6c462113fb78776279e16cacf2f48dd6
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2017-08-16 19:07:15 +0000
Commit message:
Commit: cf565e2f6c462113fb78776279e16cacf2f48dd6
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2017-08-16 19:07:15 +0000
Commit message:
Committing experiment data for davidTiling
Package: Hiiragi2013
Commit: 430f9aa78909ce8d39f7d39ae0a8e27a628f69ce
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 11:01:03 +0200
Commit message:
Commit: 430f9aa78909ce8d39f7d39ae0a8e27a628f69ce
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 11:01:03 +0200
Commit message:
Bump version
Package: Hiiragi2013
Commit: 0765457acc637bc5fae0e6280057a370e90c4ca8
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 11:00:40 +0200
Commit message:
Commit: 0765457acc637bc5fae0e6280057a370e90c4ca8
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-08-19 11:00:40 +0200
Commit message:
Add stub with deprecation warning for 'a' dataset
Package: Hiiragi2013
Commit: 48d60f5f562be312ee55c3e595618c56f7fe385c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-06-11 22:09:10 +0200
Commit message:
Commit: 48d60f5f562be312ee55c3e595618c56f7fe385c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-06-11 22:09:10 +0200
Commit message:
Bump version
Package: Hiiragi2013
Commit: a51238f4c0cb2350c59bf8c44a24c6f7218979f9
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-06-11 22:08:53 +0200
Commit message:
Commit: a51238f4c0cb2350c59bf8c44a24c6f7218979f9
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-06-11 22:08:53 +0200
Commit message:
Add missing plot
Package: Hiiragi2013
Commit: 08cd3f8f8dd56da601d3b5c6ba4d602ade1b017b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-26 16:32:06 +0200
Commit message:
Commit: 08cd3f8f8dd56da601d3b5c6ba4d602ade1b017b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-26 16:32:06 +0200
Commit message:
Bump version
Package: Hiiragi2013
Commit: ea836d60dc8ee4c9e142ebe703f85b98febb863b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-26 16:31:50 +0200
Commit message:
Commit: ea836d60dc8ee4c9e142ebe703f85b98febb863b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-26 16:31:50 +0200
Commit message:
Use texttt instead of code
Package: Hiiragi2013
Commit: db7d9b86c6e278fcd1b0d513f17ef6a4e067d6d5
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-21 11:44:54 +0200
Commit message:
Commit: db7d9b86c6e278fcd1b0d513f17ef6a4e067d6d5
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-21 11:44:54 +0200
Commit message:
Bump version
Package: Hiiragi2013
Commit: d2cf73fde92002f698f4c242bc31aff307b26170
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-21 11:44:43 +0200
Commit message:
Commit: d2cf73fde92002f698f4c242bc31aff307b26170
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-05-21 11:44:43 +0200
Commit message:
Load packages required for the vignette
Package: Hiiragi2013
Commit: 40ef00f4b1d0e25aff6c297348751e9684c57a23
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:35 -0400
Commit message:
Commit: 40ef00f4b1d0e25aff6c297348751e9684c57a23
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:35 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_23 branch
Package: Hiiragi2013
Commit: b7490527d14ae5b84b55f9c5d2cd2de64f595843
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:35 -0400
Commit message:
Commit: b7490527d14ae5b84b55f9c5d2cd2de64f595843
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-04-28 08:25:35 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_23 branch
Package: Hiiragi2013
Commit: 597de83c2392faccf95c2cd37b8f976d0e12345c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:48:37 +0100
Commit message:
Commit: 597de83c2392faccf95c2cd37b8f976d0e12345c
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:48:37 +0100
Commit message:
Bump version
Package: Hiiragi2013
Commit: 172c619ef004fa2e6b24b7a162221ca17295d485
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:28:49 +0100
Commit message:
Commit: 172c619ef004fa2e6b24b7a162221ca17295d485
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:28:49 +0100
Commit message:
Use AuthorsR
Package: Hiiragi2013
Commit: 9ed8076f21c54fd4b063581041fe5607c609233b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:27:58 +0100
Commit message:
Commit: 9ed8076f21c54fd4b063581041fe5607c609233b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:27:58 +0100
Commit message:
Mention Depends and NAMESPACE changes in DESCRIPTION
Package: Hiiragi2013
Commit: 96eccd583030ef5db038b486ce2c88073720a164
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:27:31 +0100
Commit message:
Commit: 96eccd583030ef5db038b486ce2c88073720a164
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:27:31 +0100
Commit message:
Fix example
Package: Hiiragi2013
Commit: d95a43a5f16b891f0aa9aa85ef54e59f3a75696b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:20:12 +0100
Commit message:
Commit: d95a43a5f16b891f0aa9aa85ef54e59f3a75696b
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 16:20:12 +0100
Commit message:
Clean up NAMESPACE and move packages to Suggests
Package: Hiiragi2013
Commit: a7b822e604b9a8af003d2a36253d60ac931316d8
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 15:58:06 +0100
Commit message:
Commit: a7b822e604b9a8af003d2a36253d60ac931316d8
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 15:58:06 +0100
Commit message:
Fix long lines in Rd
Package: Hiiragi2013
Commit: ee883e6f6215a2230a086329fd2864f9c37ea0d1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 15:50:48 +0100
Commit message:
Commit: ee883e6f6215a2230a086329fd2864f9c37ea0d1
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 15:50:48 +0100
Commit message:
Move packages from Depends to Imports
Package: Hiiragi2013
Commit: a0f2fe093c2936d556dfea21b3aa76511ab52b74
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:48:31 +0100
Commit message:
Commit: a0f2fe093c2936d556dfea21b3aa76511ab52b74
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:48:31 +0100
Commit message:
Add note about data("a") removal in NEWS
Package: Hiiragi2013
Commit: 4fa683efe67c5fa15fc11250851e2811734c9949
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:53:57 +0100
Commit message:
Commit: 4fa683efe67c5fa15fc11250851e2811734c9949
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:53:57 +0100
Commit message:
Remove references to a in docs
Package: Hiiragi2013
Commit: a798fbad0b35bef504a9fe3bdf56a03d183e6ab6
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:43:08 +0100
Commit message:
Commit: a798fbad0b35bef504a9fe3bdf56a03d183e6ab6
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-12 14:43:08 +0100
Commit message:
Add more details about why "a" is not included and how to get it
Package: Hiiragi2013
Commit: 39ff87bf49985c6611f9f9d74f07902ab3149038
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-03 16:13:58 +0100
Commit message:
Commit: 39ff87bf49985c6611f9f9d74f07902ab3149038
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-03 16:13:58 +0100
Commit message:
Make vignette section using "a" static
Package: Hiiragi2013
Commit: a78eb4943147a67a0f958b24b15ca0900b462995
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-02 14:06:44 +0100
Commit message:
Commit: a78eb4943147a67a0f958b24b15ca0900b462995
Author: Hugo Gruson <git@hugogruson.fr>
Date: 2026-03-02 14:06:44 +0100
Commit message:
Remove un-normalized data
- All examples in MSMB and all external uses rely on normalized data ("x")
- Files larger than 100 MB cause issues for integration in r-universe
Package: Hiiragi2013
Commit: 7250accc676715d27cfca68b3f75c58dec2087cd
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:11 -0400
Commit message:
Commit: 7250accc676715d27cfca68b3f75c58dec2087cd
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:11 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_22 branch
Package: Hiiragi2013
Commit: 9e1474a045ec389f80f143a3938a716d858506ce
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:11 -0400
Commit message:
Commit: 9e1474a045ec389f80f143a3938a716d858506ce
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-10-29 09:53:11 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_22 branch
Package: Hiiragi2013
Commit: 7b03219eedfd450acb4fd8f6652602a4c2badc91
Author: Wolfgang Huber <wolfgang.huber@embl.org>
Date: 2025-05-27 09:56:04 +0200
Commit message:
Commit: 7b03219eedfd450acb4fd8f6652602a4c2badc91
Author: Wolfgang Huber <wolfgang.huber@embl.org>
Date: 2025-05-27 09:56:04 +0200
Commit message:
Added RColorBrewer path to example code
Package: Hiiragi2013
Commit: 5bd9cdaa38a3a6a497e1a82a14b2378abbb05d8e
Author: Wolfgang Huber <wolfgang.huber@embl.org>
Date: 2025-05-27 09:50:32 +0200
Commit message:
Commit: 5bd9cdaa38a3a6a497e1a82a14b2378abbb05d8e
Author: Wolfgang Huber <wolfgang.huber@embl.org>
Date: 2025-05-27 09:50:32 +0200
Commit message:
Fixed a typo in a color name in the vignette that only became consequential recently (Gray instead of gray) Added '@` to the end of all code chunks in the vignette Did some cleanup of depends vs imports
Package: Hiiragi2013
Commit: 0853fc79f63bf27033c6edd940e9be3e51313518
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-05-22 15:06:09 +0200
Commit message:
Commit: 0853fc79f63bf27033c6edd940e9be3e51313518
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-05-22 15:06:09 +0200
Commit message:
Version bump
Package: Hiiragi2013
Commit: 76cadadb0392171cf5f993a6e277f52434b15b1c
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-05-22 15:05:45 +0200
Commit message:
Commit: 76cadadb0392171cf5f993a6e277f52434b15b1c
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-05-22 15:05:45 +0200
Commit message:
Use xcolor in vignette instead of color
Package: Hiiragi2013
Commit: e21ca5d3928f41402e504c65c773e873761b1e19
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:25 -0400
Commit message:
Commit: e21ca5d3928f41402e504c65c773e873761b1e19
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:25 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_21 branch
Package: Hiiragi2013
Commit: cdd8c11cdf07742b64606103dc9380fda360d395
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:25 -0400
Commit message:
Commit: cdd8c11cdf07742b64606103dc9380fda360d395
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-04-15 09:22:25 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_21 branch
Package: Hiiragi2013
Commit: c86919963961d7b8f2f91b9ba314b4611ef85c69
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:17 -0400
Commit message:
Commit: c86919963961d7b8f2f91b9ba314b4611ef85c69
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:17 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_20 branch
Package: Hiiragi2013
Commit: 034fe9e79b1a529a2fe2e62e56dd7143e8be87b3
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:17 -0400
Commit message:
Commit: 034fe9e79b1a529a2fe2e62e56dd7143e8be87b3
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2024-10-29 09:36:17 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_20 branch
Package: Hiiragi2013
Commit: 2ca59f7599a47ad95c0112307d1fcc2063095c7a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:39:02 -0400
Commit message:
Commit: 2ca59f7599a47ad95c0112307d1fcc2063095c7a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:39:02 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_19 branch
Package: Hiiragi2013
Commit: 3b83e1ebe6f690ae24a9aa7b304139112cd64414
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:39:02 -0400
Commit message:
Commit: 3b83e1ebe6f690ae24a9aa7b304139112cd64414
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2024-04-30 10:39:02 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_19 branch
Package: Hiiragi2013
Commit: d1761438f266786476ee562580367e335b5ea588
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:22 -0400
Commit message:
Commit: d1761438f266786476ee562580367e335b5ea588
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:22 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_18 branch
Package: Hiiragi2013
Commit: 2c5b3bf166ab23ef74cc9a86f4e53e3ceb910e78
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:22 -0400
Commit message:
Commit: 2c5b3bf166ab23ef74cc9a86f4e53e3ceb910e78
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-10-24 09:05:22 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_18 branch
Package: Hiiragi2013
Commit: a84cca93b2ba636d704ff456486524376806bf38
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:47 -0400
Commit message:
Commit: a84cca93b2ba636d704ff456486524376806bf38
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:47 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_17 branch
Package: Hiiragi2013
Commit: e5a634ae07d3a6cccb99a4d82930d61a1f514cf6
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:47 -0400
Commit message:
Commit: e5a634ae07d3a6cccb99a4d82930d61a1f514cf6
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2023-04-25 10:32:47 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_17 branch
Package: Hiiragi2013
Commit: 7b2e379cc2427904cb61ddc8e7df12245ee4bae1
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:15 -0400
Commit message:
Commit: 7b2e379cc2427904cb61ddc8e7df12245ee4bae1
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:15 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_16 branch
Package: Hiiragi2013
Commit: 5c2999717c885c0992d73ae335d5f73c4bc71a98
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:15 -0400
Commit message:
Commit: 5c2999717c885c0992d73ae335d5f73c4bc71a98
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2022-11-01 10:54:15 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_16 branch
Package: Hiiragi2013
Commit: 28881da06ec2a40843149bd3311894884a1357a0
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:08:10 +0000
Commit message:
Commit: 28881da06ec2a40843149bd3311894884a1357a0
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:08:10 +0000
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_15 branch
Package: Hiiragi2013
Commit: a2e0ba8de2ffe4898394e327d4196d5f86a7a254
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:08:09 +0000
Commit message:
Commit: a2e0ba8de2ffe4898394e327d4196d5f86a7a254
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2022-04-26 17:08:09 +0000
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_15 branch
Package: Hiiragi2013
Commit: a6524b193dd49c7bf5553ee0918668b72a1ad477
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:26 -0400
Commit message:
Commit: a6524b193dd49c7bf5553ee0918668b72a1ad477
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:26 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_14 branch
Package: Hiiragi2013
Commit: b982ab9d4595a485d20c0196a6f6107a9e938f05
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:26 -0400
Commit message:
Commit: b982ab9d4595a485d20c0196a6f6107a9e938f05
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2021-10-26 11:59:26 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_14 branch
Package: Hiiragi2013
Commit: ed4bc9020665dfb3f0578bbf6e93c7f457219c71
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:59 -0400
Commit message:
Commit: ed4bc9020665dfb3f0578bbf6e93c7f457219c71
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:59 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_13 branch
Package: Hiiragi2013
Commit: 8acb60c8babb8f8db66c423390d780c7c9345e81
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:59 -0400
Commit message:
Commit: 8acb60c8babb8f8db66c423390d780c7c9345e81
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-05-19 11:39:59 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_13 branch
Package: Hiiragi2013
Commit: 743ad96bfcd30a599b2ecbd679001f701dc3becd
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:36 -0400
Commit message:
Commit: 743ad96bfcd30a599b2ecbd679001f701dc3becd
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:36 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_12 branch
Package: Hiiragi2013
Commit: 1b61e25b8d6907d55ddc79dd3bfb969b42be1f3b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:36 -0400
Commit message:
Commit: 1b61e25b8d6907d55ddc79dd3bfb969b42be1f3b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2020-10-27 10:01:36 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_12 branch
Package: Hiiragi2013
Commit: 63e99635dfc6a6a7f663fcb5f3146d544263be80
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:41 -0400
Commit message:
Commit: 63e99635dfc6a6a7f663fcb5f3146d544263be80
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:41 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_11 branch
Package: Hiiragi2013
Commit: 89b2b35c58c0420c340511457a92b57d5670e333
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:41 -0400
Commit message:
Commit: 89b2b35c58c0420c340511457a92b57d5670e333
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2020-04-27 15:17:41 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_11 branch
Package: Hiiragi2013
Commit: 9b7ab06a63eb9534273e33c46effb27e7bed492d
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:37:01 -0400
Commit message:
Commit: 9b7ab06a63eb9534273e33c46effb27e7bed492d
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:37:01 -0400
Commit message:
bump x.y.z version to odd y after creation of RELEASE_3_10 branch
Package: Hiiragi2013
Commit: f7a6f0ad760d4bf75bbf69e8fe9509d879f7a31e
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:40 -0400
Commit message:
Commit: f7a6f0ad760d4bf75bbf69e8fe9509d879f7a31e
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-10-29 13:29:40 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_10 branch
Package: Hiiragi2013
Commit: c9046c9dfc734b7c2a959efa0373c5ba67af8ea5
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:18 -0400
Commit message:
Commit: c9046c9dfc734b7c2a959efa0373c5ba67af8ea5
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 12:06:18 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_9 branch
Package: Hiiragi2013
Commit: 7106cf8133a93e87ba5b1a2aadf58c3b1297fb31
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:33 -0400
Commit message:
Commit: 7106cf8133a93e87ba5b1a2aadf58c3b1297fb31
Author: Hervé Pagès <hpages@fredhutch.org>
Date: 2019-05-02 11:56:33 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch
Package: Hiiragi2013
Commit: ac2aa5561633d2af969c5732680c25c1e3afb352
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
Commit: ac2aa5561633d2af969c5732680c25c1e3afb352
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:38:33 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_8 branch
Package: Hiiragi2013
Commit: 403723ccb45cbf1a9a5630d163384c20a6491a84
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:22 -0400
Commit message:
Commit: 403723ccb45cbf1a9a5630d163384c20a6491a84
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2018-10-30 11:36:22 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch
Package: Hiiragi2013
Commit: 63f436b15a109a0cd5b056b7e1c5e0dd6841a590
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
Commit: 63f436b15a109a0cd5b056b7e1c5e0dd6841a590
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:34:47 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_7 branch
Package: Hiiragi2013
Commit: 8ddc200d11e719cdf527f3610a896c150d916b57
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:27 -0400
Commit message:
Commit: 8ddc200d11e719cdf527f3610a896c150d916b57
Author: Nitesh Turaga <nitesh.turaga@gmail.com>
Date: 2018-04-30 10:31:27 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch
Package: Hiiragi2013
Commit: e86b1b0d7b634c5308edab56f87d4ae538ea84c0
Author: aoles <andrzej.oles@gmail.com>
Date: 2018-04-10 23:58:28 +0200
Commit message:
Commit: e86b1b0d7b634c5308edab56f87d4ae538ea84c0
Author: aoles <andrzej.oles@gmail.com>
Date: 2018-04-10 23:58:28 +0200
Commit message:
Adapt to changes introduced in cluster 2.0.7
Package: Hiiragi2013
Commit: 00c351016a137abd8b24a17946396968fea33397
Author: aoles <andrzej.oles@gmail.com>
Date: 2018-01-19 15:56:40 +0100
Commit message:
Commit: 00c351016a137abd8b24a17946396968fea33397
Author: aoles <andrzej.oles@gmail.com>
Date: 2018-01-19 15:56:40 +0100
Commit message:
Update call to BiocStyle format function
Package: Hiiragi2013
Commit: d094f05962329e5baece124bd9c365eda607aa21
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
Commit: d094f05962329e5baece124bd9c365eda607aa21
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 12:09:07 -0400
Commit message:
bump x.y.z versions to odd y after creation of RELEASE_3_6 branch
Package: Hiiragi2013
Commit: 321cef59dd9f2f5f1054f37794cfb3355413f7d8
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:25 -0400
Commit message:
Commit: 321cef59dd9f2f5f1054f37794cfb3355413f7d8
Author: vobencha <valerie.obenchain@roswellpark.org>
Date: 2017-10-30 11:58:25 -0400
Commit message:
bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch
Package: Hiiragi2013
Commit: b507b2be2d98f6aad402150629cfd343b3db88fb
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2017-08-16 18:46:23 +0000
Commit message:
Commit: b507b2be2d98f6aad402150629cfd343b3db88fb
Author: nturaga <nitesh.turaga@gmail.com>
Date: 2017-08-16 18:46:23 +0000
Commit message:
Committing experiment data for Hiiragi2013
Package: DECIPHER
Commit: b5f1d097cc4fa8ff6336b4f59da0477dfc039bd8
Author: Erik Wright <sixfoot10@Eriks-MacBook-Pro-2.local>
Date: 2026-08-19 13:08:29 -0500
Commit message:
Commit: b5f1d097cc4fa8ff6336b4f59da0477dfc039bd8
Author: Erik Wright <sixfoot10@Eriks-MacBook-Pro-2.local>
Date: 2026-08-19 13:08:29 -0500
Commit message:
Updates. Committer: Erik Wright <Erik.Wright@bcm.edu> Changes to be committed: modified: DESCRIPTION modified: R/MaskAlignment.R modified: R/StaggerAlignment.R modified: R/Treeline.R modified: man/AdjustAlignment.Rd modified: man/MaskAlignment.Rd modified: man/StaggerAlignment.Rd modified: man/Treeline.Rd modified: src/ClusterML.c modified: vignettes/ArtOfAlignmentInR.Rnw modified: vignettes/FindChimeras.Rnw modified: vignettes/GrowingTrees.Rnw
Package: DuckDBDataFrame
Commit: 2f7702eb092bea57c7c8f18303419787c2e0b8ce
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 11:05:03 -0700
Commit message:
Commit: 2f7702eb092bea57c7c8f18303419787c2e0b8ce
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 11:05:03 -0700
Commit message:
fix: export nlevels method
Package: DuckDBDataFrame
Commit: 923f4b46c594e7951c065bce832f4ecb3e759e45
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 10:53:33 -0700
Commit message:
Commit: 923f4b46c594e7951c065bce832f4ecb3e759e45
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 10:53:33 -0700
Commit message:
feat: add levels()/nlevels() for DuckDBColumn Return the recorded collevels entry's levels (or NULL/0) without materializing the column.
Package: h5mread
Commit: 944b4f38c28c3d81c5c97bd0dde79d0bcffa02a7
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 10:24:19 -0700
Commit message:
Commit: 944b4f38c28c3d81c5c97bd0dde79d0bcffa02a7
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-19 10:24:19 -0700
Commit message:
update TODO
Package: atena
Commit: 15ca7a1589e11e37fc9296e96f83554515730e1d
Author: Robert Castelo <robert.castelo@upf.edu>
Date: 2026-08-19 19:06:45 +0200
Commit message:
Commit: 15ca7a1589e11e37fc9296e96f83554515730e1d
Author: Robert Castelo <robert.castelo@upf.edu>
Date: 2026-08-19 19:06:45 +0200
Commit message:
Add cigarillo to imports
Package: AnnotatedBCGEData
Commit: 8a3eacda1789d3ac390d77e04d824fbe37540e3b
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 10:06:18 -0600
Commit message:
Commit: 8a3eacda1789d3ac390d77e04d824fbe37540e3b
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 10:06:18 -0600
Commit message:
news updates
Package: AnnotatedBCGEData
Commit: e3fdb2408def9268c1facd8348531a38339d0549
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 10:05:07 -0600
Commit message:
Commit: e3fdb2408def9268c1facd8348531a38339d0549
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 10:05:07 -0600
Commit message:
fixed version warning
Package: AnnotatedBCGEData
Commit: 3982cc32be2c73352e0d8da84545f25b1c64c268
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 09:56:49 -0600
Commit message:
Commit: 3982cc32be2c73352e0d8da84545f25b1c64c268
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-19 09:56:49 -0600
Commit message:
added list of DOIs to Zenodo and updated code
Package: DuckDBDataFrame
Commit: 79c192c3f1b058c9ed42c11895133b7d5579cdf0
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 08:54:10 -0700
Commit message:
Commit: 79c192c3f1b058c9ed42c11895133b7d5579cdf0
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-19 08:54:10 -0700
Commit message:
fix: report factor type from coltypes()/type() without materializing (0.99.23) collevels (set by readParquet() from the schema's categories/ categoriesOrdered, a standard Frictionless Table Schema keyword) already correctly restored factor columns on materialization (as.data.frame(), as.vector()). But coltypes()/type() derived their answer purely from DuckDB's live SQL schema, which has no categorical type, so they always reported "character" -- and since show()'s header row is driven by coltypes(), a lazy DuckDBDataFrame's colData() display showedfor a column that was, in fact, a factor as soon as you pulled it out. coltypes,DuckDBTable-method now overrides "character" to "factor" for any column with a collevels entry; type,DuckDBColumn-method and the show() header inherit the fix since both derive from coltypes(). coltypes<- is unchanged: "factor" isn't a settable cast target, and recasting a factor column's underlying type still drops its collevels entry as before. </pre> </div> Package: hypeR
Commit: dc219ec2eb14d9fb6713200c3380d92f06489302
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2026-08-18 16:46:40 -0400
Commit message:
Fix CRAN/BiocCheck errors: missing data dir, NAMESPACE imports, examples, LazyDataPackage: hypeR
Commit: e219c4a79acdf5903cf507603830968cc5017718
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2026-08-18 14:43:11 -0400
Commit message:
updated hyp_to_excel docPackage: hypeR
Commit: 8d875041ae8da8b8d3f208b851549fe237b12824
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2026-08-18 14:25:26 -0400
Commit message:
Merge remote-tracking branch 'upstream/devel' into develPackage: hypeR
Commit: ae7aea13bebec98077b3f13a5936078063baede6
Author: Copilot <198982749+Copilot@users.noreply.github.com>
Date: 2026-07-09 15:43:21 -0400
Commit message:
Add `pval`/`fdr` export filtering to `hyp_to_excel` (#66) * Initial plan * feat: add pval/fdr filtering to hyp_to_excel * refactor: use dplyr filter in hyp_to_excel --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>Package: hypeR
Commit: e066bbd437da9b091b74821a26cc42bfffa91b82
Author: tetomonti <montilab@bu.edu>
Date: 2026-06-24 12:15:11 -0400
Commit message:
Handle zero significance values in hyp_dotsPackage: hypeR
Commit: 24758ab5249f33b6be51d62361b7debc4f838597
Author: Copilot <198982749+Copilot@users.noreply.github.com>
Date: 2026-06-23 14:12:01 -0400
Commit message:
Replace deprecated `purrr::when()` usage in plotting helpers (#65) * Initial plan * Replace deprecated purrr::when usage in plotting helpers --------- Co-authored-by: copilot-swe-agent[bot] <198982749+Copilot@users.noreply.github.com>Package: hypeR
Commit: a8cbdfeb3e360c790e7cb134e975f154024685c7
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2025-12-11 14:01:48 -0500
Commit message:
update build yml to 3_22Package: hypeR
Commit: 157ce44b988b902d5a64107898ff88b2a1fae299
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2025-12-01 14:36:37 -0500
Commit message:
fix tibble warningPackage: hypeR
Commit: 1aef3412c757c099bdd296e253443b2d2304cde0
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-12-01 14:16:31 -0500
Commit message:
UndeprecatePackage: hypeR
Commit: 8b3b9ddadab2243bf67f6cdee1e269eb9ab9a4ad
Author: Andrew Chen <andrewdchen@berkeley.edu>
Date: 2025-11-24 16:37:45 -0500
Commit message:
Merge remote-tracking branch 'upstream/RELEASE_3_22'Package: MetaboDynamics
Commit: bd76b521ec2461318c8208d35b08645f019b7d3a
Author: Katja Danielzik <katja.danielzik@uni-due.de>
Date: 2026-08-19 17:35:06 +0200
Commit message:
version bumpPackage: MetaboDynamics
Commit: 4b6d954dc5a9106eb4c89e50eb7d89da2ccbd5ad
Author: Katja Danielzik <katja.danielzik@uni-due.de>
Date: 2026-08-19 17:34:49 +0200
Commit message:
typo fixPackage: MetaboDynamics
Commit: d73d4b29f4ff3521748140e48297d2bc5934e2ae
Author: Katja Danielzik <katja.danielzik@uni-due.de>
Date: 2026-08-19 17:28:17 +0200
Commit message:
version bumpPackage: geneslator
Commit: 9ecb3518e1c914113c190b543c38f09f9a788590
Author: GMicale <gmgmicky@gmail.com>
Date: 2026-08-19 13:47:58 +0200
Commit message:
Updated list of authorsPackage: gDRutils
Commit: 1f1752b873e27567b2ec6ffcf1c969e44d8336e3
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2026-08-19 13:05:01 +0200
Commit message:
Merge pull request #197 from gdrplatform/GDR-3530 style: remove alignment whitespace flagged by gDRstyle linterPackage: gDRutils
Commit: 4e73aa740d940da56a70ba6ef335034df2517441
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 14:57:36 +0200
Commit message:
test: exempt explanatory comment from ticket-ref linterPackage: gDRutils
Commit: 20e8aa7f73d60b88b9a0055d34ed60d6b968c37f
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 12:14:59 +0200
Commit message:
docs: use imperative verb in NEWS entryPackage: gDRutils
Commit: e6863f2bc6764f88506e8bf9d3562ef39e80af97
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 21:15:04 +0200
Commit message:
docs: mark internal helpers and move ticket ref into TODO commentPackage: gDRutils
Commit: b74da9dd8efdccf49b009894a67fe3470e504a87
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 13:01:12 +0200
Commit message:
style: remove alignment whitespace flagged by gDRstyle linterPackage: gDRutils
Commit: 9bdc5222e8282df33e16e4b0dc78de805189a586
Author: Arkadiusz Gladki <arkadiusz.gladki@contractors.roche.com>
Date: 2026-08-12 14:59:16 +0200
Commit message:
style: use NROW/NCOL instead of nrow/ncol in test (GDR-3514)Package: gDRcore
Commit: 249dce08337fdd6811328ec8a8b663222703fa51
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2026-08-19 13:04:43 +0200
Commit message:
Merge pull request #205 from gdrplatform/GDR-3530 style: remove alignment whitespace flagged by gDRstyle linterPackage: gDRcore
Commit: ed0fa8d81b24dc343dbb71b691291355094ab343
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 11:53:50 +0200
Commit message:
Merge remote-tracking branch 'origin/main' into GDR-3530 # Conflicts: # DESCRIPTION # NEWS.mdPackage: gDRcore
Commit: 43e6f55426e111ffc084176a7c9c77fb0a988a7c
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 11:45:59 +0200
Commit message:
chore: re-bump version to 1.11.12 and rebuild changelog off mainPackage: gDRcore
Commit: 35717659b0408674eb207a5978072727054b5359
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 10:09:02 +0200
Commit message:
chore: start NEWS entry with an accepted verbPackage: gDRcore
Commit: 4c89a5543efa5032da135e9edc882d089eb93ff8
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 09:16:28 +0200
Commit message:
test: keep regression marker with nolint directivePackage: gDRcore
Commit: 5f726c66a1017910666d8b71673c144309b7a817
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 08:25:07 +0200
Commit message:
test: drop ticket reference from regression test namePackage: gDRcore
Commit: cfcd2b1b2edcdf51444e0c6791475b8a42af4724
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 22:13:52 +0200
Commit message:
Merge branch 'main' into GDR-3530 # Conflicts: # DESCRIPTION # NEWS.mdPackage: gDRcore
Commit: e6966fdf49d37658a2e973590d46a4216d7a3f07
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 21:15:01 +0200
Commit message:
docs: mark internal helper functions with @keywords internalPackage: gDRcore
Commit: ede4aaa1c56adabab2d971017fb683d59ee45fce
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 13:01:18 +0200
Commit message:
style: remove alignment whitespace flagged by gDRstyle linterPackage: gDRimport
Commit: 6e6ffcf6c6900047577e301a946068d259e26072
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2026-08-19 13:03:58 +0200
Commit message:
Merge pull request #124 from gdrplatform/GDR-3530 style: remove alignment whitespace flagged by gDRstyle linterPackage: gDRimport
Commit: e3e781ac0cb16fd7acdf6f6c7f9a9fac2b8f480e
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-18 12:14:59 +0200
Commit message:
docs: use imperative verb in NEWS entryPackage: gDRimport
Commit: 448df15eb976db0249f9d4a040e81aa5e762b048
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 21:14:58 +0200
Commit message:
docs: mark internal helper functions with @keywords internalPackage: gDRimport
Commit: f71184197209fc9e1c8890eedf168784515ffe4d
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2026-08-17 13:01:07 +0200
Commit message:
style: remove alignment whitespace flagged by gDRstyle linterPackage: DuckDBDataFrame
Commit: a1eb918d74f70a8767c5e69f8e026af1172e0b33
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-18 22:19:34 -0700
Commit message:
fix: preserve factor columns in splitParquetPart() (0.99.22) DuckDB has no categorical/dictionary SQL type, so the temp-table round trip flattened an Arrow dictionary-encoded column (how arrow::write_parquet() stores an R factor) to plain VARCHAR -- silently turning factors into character, and discarding any level unused in the data outright (not recoverable from the written values once that happens). Factor columns (including ordered ones and unused levels) are now detected from the source file's schema before the DuckDB-based row split and restored on each output part afterward via a small, per-part arrow-only read/rewrite. DuckDB still does the actual row splitting; arrow only touches columns that need it, and only when factor columns are present.Package: GSEAlens
Commit: d1807abe23fdacd7d9ebaf212e545abf0b471fd3
Author: DDL095 <sealgod@qq.com>
Date: 2026-08-19 12:12:16 +0800
Commit message:
v0.99.35: correct author metadata; add CITATION and packaging hygiene Author identity correction (DESCRIPTION Authors@R): - Replace ORCID 0000-0002-1825-0097 (ORCID's fictional demo account Josiah Carberry) with the author's real ORCID 0000-0002-2616-5132 - Use real name Shenhui Xu (aut + cre, unchanged email) instead of the placeholder "Dudali Lab" persona, per Bioconductor guidance that the maintainer be an identifiable individual - Add contributor and reviewer credits: Yuanhang Zhao (ctb, zy0928hang@163.com) Mireia Ramos-Rodriguez (rev, Bioconductor reviewer of the initial submission, https://github.com/mireia-bioinfo) Synchronized identity across all tracked files: - LICENSE stub COPYRIGHT HOLDER and LICENSE.md copyright line - Package-level man page @author (roxygen + Rd) - YAML author field in all four vignettes (EN + ZH) Packaging hygiene: - Add inst/CITATION so citation("GSEAlens") resolves correctly; the version string is derived from meta$Version at render time - .Rbuildignore: exclude ^\.pi-subagents$ (local session artifacts that previously leaked into the tarball causing a hidden-files NOTE) and *.tar.gz build products Verified: R CMD check --no-manual (with vignettes) Status: OK (0 ERROR / 0 WARNING / 0 NOTE); BiocCheck 0 ERRORS / 0 WARNINGS; CITATION parsing and non-ASCII name rendering checked.Package: DuckDBDataFrame
Commit: c3ba679214444002060192d41f5f53dac2613f60
Author: Patrick Aboyoun <aboyoun.patrick@gene.com>
Date: 2026-08-18 19:24:22 -0700
Commit message:
feat: add splitParquetPart() to rebalance a large flat part file (0.99.21) Splits a directory's single part-*.parquet file into n_parts smaller ones in place, e.g. after a writer emitted everything into one large part-0.parquet. Uses DuckDB SQL (COPY TO), matching parquet-io.R's existing convention, rather than arrow's R bindings. Row order is preserved: part 0 gets the first ~1/n_parts rows in on-disk order, part 1 the next ~1/n_parts, and so on. This needs an explicit ORDER BY on both the ntile() bucket assignment and each part's write via DuckDB's file_row_number Parquet-reader option, since neither a bare ntile() OVER () nor an unordered read-back is guaranteed to preserve on-disk order under DuckDB's parallel scan. The split assignment is materialized into a temp table before any part is written, so which rows land in which part doesn't depend on scan order staying consistent across the several separate COPY statements that follow.Package: growkar
Commit: 08e4ee86b89b747e2dd0a84f595bca63022d6015
Author: Pooja Sethiya <poojasethiya24@gmail.com>
Date: 2026-07-29 09:27:53 +1000
Commit message:
Ignore R CMD check and build artifacts Add growkar.Rcheck/, built tarballs, and the knit README.html to .gitignore so local check/build output is not accidentally committed.Package: growkar
Commit: a928ac1c7ce646246dbdd1e9d039973b93e0a21a
Author: Pooja Sethiya <poojasethiya24@gmail.com>
Date: 2026-07-28 14:01:01 +1000
Commit message:
Add Bioconductor review response and ignore it from build Point-by-point reply to the review (#4227): S4 class system, ggplot2 moved to Suggests, tidyomics adoption, explicit warning handling, and vignette updates. Build-ignored so it is not shipped in the package.Package: growkar
Commit: a9957e99e148fac271506adaafa4b98bff6e1c84
Author: Pooja Sethiya <poojasethiya24@gmail.com>
Date: 2026-07-27 15:44:26 +1000
Commit message:
Refresh worked examples and README for the S4 API Re-render both extdata workflows against the refactored package so their output and figures reflect the new S4 API rather than hand-edited state. - Re-knit dd-growkar-workflow and scbs181-growkar-workflow (.md + figures) using GrowthExperiment()/growth_metrics()/summarize_growth_metrics(). - Remove stale pre-refactor .html renders (previously shipped in the tarball as they were not in .Rbuildignore) and orphaned figure PNGs no longer referenced by the rendered .md files. - Re-knit README with pandoc --wrap=none so links stay single-line, and refresh the README figures.Package: growkar
Commit: 90b3031341d6da32d943bf0f1e839e8280a6a5a5
Author: Pooja Sethiya <poojasethiya24@gmail.com>
Date: 2026-07-27 15:40:20 +1000
Commit message:
Refactor to single S4 class system (GrowthExperiment / GrowthFit) Address Bioconductor review (#4227): remove all S3 classes in favour of a single S4 hierarchy. - Add S4 GrowthExperiment (extends SummarizedExperiment) with a validity method, GrowthExperiment() constructor, and as(x, "GrowthExperiment") coercion. Remove the growkar_data S3 class and as_growkar() wrapper. - Remove as_summarized_experiment() entirely (never released; BiocCheck warns on .Deprecated). Use GrowthExperiment() / as() instead. - Convert the growkar_fit S3 class to S4 GrowthFit with show/summary/coef/ fitted/residuals/nobs methods; extract_params()/augment_growth_fit() are now S4 generics. - Move ggplot2 + RColorBrewer to Suggests with call-time guards (growkar_require_graphics/require_suggested in R/utils.R). - Move tidySummarizedExperiment to Imports; delegate SE->tidy conversion to its as_tibble() method. Replace suppressWarnings with targeted withCallingHandlers. - Regenerate man/ docs; update tests and the introduction vignette. - Ignore local growkar.BiocCheck/ output directory.Package: BatchQC
Commit: a78e7970d68662017ef4b2c6ecd9d345933b66c0
Author: technophilic03 <leng@bu.edu>
Date: 2026-08-18 18:30:04 -0400
Commit message:
Bump x.y.z version to odd y for devel channelPackage: BatchQC
Commit: 0adfb6c9e83cd45ef32c6373af5016f1a5e91409
Author: technophilic03 <leng@bu.edu>
Date: 2026-08-18 17:52:13 -0400
Commit message:
Merge remote-tracking branch 'origin/devel' into develPackage: BatchQC
Commit: 6022f5d1444692994f8a739cd47c7e72a88ca7af
Author: Jessica <102758461+jessmcc22@users.noreply.github.com>
Date: 2026-08-18 12:21:32 -0600
Commit message:
Merge pull request #143 from jessmcc22/devel Clarified README and Corrected Vignette lambda stat cutoffPackage: BatchQC
Commit: 7a50741af7cc4db20e8710118b69183ba24ec03b
Author: jessmcc22Mac <jessmcc@bu.edu>
Date: 2026-08-18 14:17:22 -0400
Commit message:
Updated version and date in Description and provided version details in the News filePackage: BatchQC
Commit: 95d3adfc177c5277e199e07e790dac32d2ba1538
Author: jessmcc22Mac <jessmcc@bu.edu>
Date: 2026-08-18 14:16:39 -0400
Commit message:
Corrected spacing and line indent issues for a number of man filesPackage: BatchQC
Commit: 2d5c6c4b9d7ee5e9968dfff8bb195b7dae0a056b
Author: jessmcc22Mac <jessmcc@bu.edu>
Date: 2026-08-18 12:07:39 -0400
Commit message:
Updated vignette files to have headers for each code chunkPackage: BatchQC
Commit: 1975d1bc908d83fc699b375f87928dff6f7e913a
Author: jessmcc22Mac <jessmcc@bu.edu>
Date: 2026-08-18 12:07:06 -0400
Commit message:
Updated ReadMe file to show how to display code to launch shiny app (it was set to hide it)Package: BatchQC
Commit: 70dd002ca71d4b0c36efc4f437922505e1f57f92
Author: jessmcc22Mac <jessmcc@bu.edu>
Date: 2026-08-17 16:56:50 -0400
Commit message:
Updated roxygen header for lambda statistic of -7 (not -2)Package: TrIdent
Commit: fc5c081e891d43984de4990d4652dfd87aef358f
Author: jlmaier <jlmaier@ncsu.edu>
Date: 2026-08-18 16:40:34 -0400
Commit message:
documentation updatesPackage: TrIdent
Commit: 2fa1b5e829bb0efce0b185be8748436611391e3f
Author: jlmaier <jlmaier@ncsu.edu>
Date: 2026-08-08 19:29:51 -0400
Commit message:
Added geneSearch() function!Package: AnnotatedBCGEData
Commit: 1d47dd32f434a76e0b83c24dd52c44fd299a75f4
Author: Heidi <heidi.climber@gmail.com>
Date: 2026-08-18 14:31:41 -0600
Commit message:
resolving build warningPackage: GSEAlens
Commit: 76349a9899851653ba988d75d05041a343f3c853
Author: DDL095 <sealgod@qq.com>
Date: 2026-08-19 03:52:12 +0800
Commit message:
v0.99.34: deterministic per-contrast GSEA seeding (upstream seed regression) clusterProfiler 4.19.3 switched GSEA() to the enrichit engine, and in 4.20.0 (Bioconductor 3.23) the seed argument of GSEA() is silently dropped: it lands in ... and is never forwarded to enrichit::gsea_gson(), so the multilevel permutation engine draws a fresh seed from the worker R RNG on every call. Combined with future_lapply(future.seed = TRUE) deriving its worker seed stream from the main-session RNG state at call time, re-running the same data could flip borderline pathways across the significance cutoff (observed p-value drift up to +/-0.016), reproducing the publicly reported "same code, different pathway counts" issue. Fix in R/04_calculation.R: - batch_calc_gsea() gains a seed argument (default 123; NULL restores native engine sampling) - .derive_task_seed() maps (seed, alphabetical rank of contrast id) to a per-contrast seed, so results are independent of workers/chunk_size - Seeds are derived in the main process and passed to future workers as a plain named integer vector; workers apply withr::local_seed() (restores RNG state on exit, per reviewer guidance against bare set.seed()) and also forward the seed to GSEA(), which becomes effective natively once clusterProfiler >= 4.21.1 restores it - The effective seed is recorded in metadata$parameters$seed Tests: tests/testthat/test-batch-calc-gsea-seed.R pins cross-run reproducibility and worker-count independence (11 assertions). NEWS.md documents the fix and the one-time result shift vs pre-fix capsules. Verified: R CMD check 0 ERROR / 0 WARNING; BiocCheck 0 ERRORS / 0 WARNINGS.Package: FlowSorted.DLPFC.450k
Commit: 04985df78913e178fe54cb157286f3b8c243b500
Author: Andrew Jaffe <andrewejaffe@gmail.com>
Date: 2026-08-18 14:17:35 -0400
Commit message:
Fix reference-data access to preserve minfi::estimateCellCounts compatibility The initial migration exposed FlowSorted.DLPFC.450k as a plain callable function. minfi::estimateCellCounts() (and likely other downstream consumers) accesses reference packages via the historical lazy-data pattern: data(list = pkg); get(pkg). With a plain function, get(pkg) returned the function object itself rather than the RGChannelSet, silently breaking estimateCellCounts. FlowSorted.DLPFC.450k is now an active binding installed in .onLoad, so referencing the bare name (matching the old data() usage) downloads and returns the actual object, caching it for the session. Verified against a live estimateCellCounts(..., compositeCellType = "DLPFC") run.Package: FlowSorted.DLPFC.450k
Commit: bf51a71e56ee3355199368d4fb884a4d1a195858
Author: Andrew Jaffe <andrewejaffe@gmail.com>
Date: 2026-08-18 13:55:42 -0400
Commit message:
Move large data object to Zenodo, download via BiocFileCache The bundled FlowSorted.DLPFC.450k.rda (130MB) exceeded GitHub's file size limit ahead of Bioconductor's migration off its own git server. It is now hosted on Zenodo (doi:10.5281/zenodo.21998569) and downloaded on first use via BiocFileCache, which caches it locally afterwards. FlowSorted.DLPFC.450k() replaces the former data(...) call. Also removes the stray external_data_store.txt, adds Authors@R, and title-cases the Title field to clear R CMD check NOTEs.Package: FlowSorted.Blood.450k
Commit: 9ce06887463316642b0ae5514cfe1892c6f4fc3e
Author: Andrew Jaffe <andrewejaffe@gmail.com>
Date: 2026-08-18 14:17:32 -0400
Commit message:
Fix reference-data access to preserve minfi::estimateCellCounts compatibility The initial migration exposed FlowSorted.Blood.450k as a plain callable function. minfi::estimateCellCounts() (and likely other downstream consumers) accesses reference packages via the historical lazy-data pattern: data(list = pkg); get(pkg). With a plain function, get(pkg) returned the function object itself rather than the RGChannelSet, silently breaking estimateCellCounts. FlowSorted.Blood.450k and FlowSorted.Blood.450k.compTable are now active bindings installed in .onLoad, so referencing the bare name (matching the old data() usage) downloads and returns the actual object, caching it for the session. Verified against a live estimateCellCounts(..., compositeCellType = "Blood") run.Package: FlowSorted.Blood.450k
Commit: 0087d75c829a63026a7e36d325ebf016cb533207
Author: Andrew Jaffe <andrewejaffe@gmail.com>
Date: 2026-08-18 13:55:38 -0400
Commit message:
Move large data objects to Zenodo, download via BiocFileCache The bundled FlowSorted.Blood.450k.rda (136MB) and FlowSorted.Blood.450k.compTable.rda (40MB) exceeded GitHub's file size limit ahead of Bioconductor's migration off its own git server. Both are now hosted on Zenodo (doi:10.5281/zenodo.21996983) and downloaded on first use via BiocFileCache, which caches them locally afterwards. FlowSorted.Blood.450k() and FlowSorted.Blood.450k.compTable() replace the former data(...) calls. Also removes the stray external_data_store.txt, adds Authors@R, and title-cases the Title field to clear R CMD check NOTEs.Package: chimeraviz
Commit: 6ec2c532cc8757933ec1ad572cb6e3d4a2d071b1
Author: Stian Lågstad <lagstad@proton.me>
Date: 2026-08-18 20:01:51 +0200
Commit message:
bump: versionPackage: chimeraviz
Commit: ade4f669ab6efab179a25b88f1befdacd4936a89
Author: Stian Lågstad <lagstad@proton.me>
Date: 2026-08-18 20:01:32 +0200
Commit message:
fix: move data.table to Imports, update lintr config, update Docker images - Move data.table from Depends to Imports in DESCRIPTION (code already uses data.table:: prefix throughout, so no R changes needed). Ref https://github.com/stianlagstad/chimeraviz/issues/100 - Fix .lintr config: with_defaults() -> linters_with_defaults() for lintr v3 - Dockerfiles: add cigarillo dependency - Dockerfile.release: bump base image to bioconductor RELEASE_3_23 - Dockerfile.devel: reorder BioConductor installs (add Rgraphviz explicit step) - docker/README.md: update docsPackage: h5mread
Commit: 35698d094f521c9fffcc1377793c1a020e0fc580
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2026-08-18 10:44:15 -0700
Commit message:
h5mread 1.5.1: Improve C code in charge of handling HDF5 scalar attributes Also H5DSetDescriptor() now recognizes HDF5 attribute "rhdf5-NA.OK" in addition to old attribute "as.na" (the latter got dropped in rhdf5 2.57.10).Package: affxparser
Commit: 6fd83fcaca7707c1b198482ae11bc8aeb0e2c0b2
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 13:36:18 -0400
Commit message:
fixing merge and bumping versionPackage: affxparser
Commit: fe70ee6ae9f596eee13feb2b79e82698ad540a79
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 13:33:57 -0400
Commit message:
Merge pull request #54 from jeroen/fix-windows-arm64-mingw Fix Windows arm64 (clang) build: __MINGW_EXTENSION undefinedPackage: affxparser
Commit: b8c51bd6e2a6354d95f95846770c4ab093c4534b
Author: Jeroen Ooms <jeroenooms@gmail.com>
Date: 2026-07-28 23:39:48 +0200
Commit message:
Fix compilation with clang on Windows arm64Package: affxparser
Commit: 0dac172d2eea0f3c7a089ad985667301affaa141
Author: Henrik Bengtsson <henrik.bengtsson@gmail.com>
Date: 2025-01-06 16:18:47 -0800
Commit message:
Bump develop version [ci skip]Package: affxparser
Commit: 51d1dc312cdaa0f8bc869c5605b0a4e8f78326bd
Author: Henrik Bengtsson <henrik.bengtsson@gmail.com>
Date: 2025-01-06 15:50:26 -0800
Commit message:
Merge tag '1.79.1' into develop affxparser 1.79.1Package: Rgraphviz
Commit: 454951d7615e8fb118250fcf47c47f16662c2d3a
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 12:57:11 -0400
Commit message:
Bumping versionPackage: Rgraphviz
Commit: 7ed713f9ce19ea44a08ef9bff7414cf9d57ab8bb
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 12:56:16 -0400
Commit message:
Merge remote-tracking branch 'upstream/devel' into develPackage: Rgraphviz
Commit: f002e309a4e5f0cc40cc931ed2c8868d2742ac88
Author: Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
Date: 2026-08-18 11:42:54 -0400
Commit message:
Merge pull request #27 from jeroen/pr Fix bundled Graphviz build on Windows arm64Package: Rgraphviz
Commit: d2d9e2c0ae4c37307614a120003790dc41f1bb5c
Author: Jeroen Ooms <jeroenooms@gmail.com>
Date: 2026-07-28 22:31:03 +0200
Commit message:
Fix bundled Graphviz build on Windows arm64Package: singIST
Commit: 49b451ff697d1339fb7c285657929cd41f9cae3a
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-18 15:09:36 +0200
Commit message:
Fix merge conflict in DESCRIPTION, set version 1.1.1, remove .RhistoryPackage: singIST
Commit: cd7944dcb01720997bfc22360ed532c355672540
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-17 19:28:00 +0200
Commit message:
Usemart and git lfs of OXA model removed Merge branch 'master' into devel # Conflicts: # DESCRIPTIONPackage: singIST
Commit: 9a0cd2636e509666205c1d3dcec765ddc51bb86b
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-17 19:10:22 +0200
Commit message:
Usemart and git lfs of OXA model removedPackage: singIST
Commit: 64d93e01401d38f6a55408fba862a24fc69cf0a2
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-08-04 12:10:30 +0200
Commit message:
Version bump to 1.1.1: cleaned git history of oversized data filePackage: singIST
Commit: 687ff5874376b84cceb9d99b1d163f4d49efff8b
Author: A Wokaty <andres.wokaty@sph.cuny.edu>
Date: 2026-04-28 09:06:09 -0400
Commit message:
bump x.y.z version to odd y following creation of RELEASE_3_23 branchPackage: singIST
Commit: 7314208e929e53363cda5764fc8e67ea8078f1d4
Author: A Wokaty <andres.wokaty@sph.cuny.edu>
Date: 2026-04-28 09:06:09 -0400
Commit message:
bump x.y.z version to even y prior to creation of RELEASE_3_23 branchPackage: singIST
Commit: 7b9da3ba77e9ea7324a77386aa1b4c1c7b4cd5a8
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-01-07 10:44:12 +0100
Commit message:
Solve errorPackage: singIST
Commit: f6beeb36c4cd93e6178bc8d0799082e827156482
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-01-06 21:01:57 +0100
Commit message:
Reduce OXA object sizePackage: singIST
Commit: a1281a44a8fb733fc15c7d2fb32aa529a61d2690
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-01-06 18:11:01 +0100
Commit message:
Remove unused dependenciesPackage: singIST
Commit: 9ddb1e7d3187e086c708aea5e1627d263022b666
Author: Aitor Moruno Cuenca <amoruno@almirall.com>
Date: 2026-01-06 15:55:08 +0100
Commit message:
Trigger build minor reviews
</div> </div>