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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.
This list is also available as an RSS feed (devel branch), and RSS feed (release branch)
Package: TBSignatureProfiler
Commit: 5d61060c9f67e68a13cf704bc28d76575f043eee
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-18 16:47:48 -0400
Commit message:
Commit: 5d61060c9f67e68a13cf704bc28d76575f043eee
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-18 16:47:48 -0400
Commit message:
Update heatmap cluster columns argument
Package: TBSignatureProfiler
Commit: c4e84f4cdac0e4798b7b6bd4e024eff60b59fc22
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-04-30 14:29:37 -0400
Commit message:
Commit: c4e84f4cdac0e4798b7b6bd4e024eff60b59fc22
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-04-30 14:29:37 -0400
Commit message:
update bioc badges
Package: liftOver
Commit: 3403088907285e538c7464c2ee59a9ce12a87f9c
Author: A Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-18 14:16:33 -0400
Commit message:
Commit: 3403088907285e538c7464c2ee59a9ce12a87f9c
Author: A Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-18 14:16:33 -0400
Commit message:
Bump version to 1.33.1
Package: liftOver
Commit: d4b130c84ea4e905caa996d6d2433bb1692491f8
Author: A Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-18 14:16:11 -0400
Commit message:
Commit: d4b130c84ea4e905caa996d6d2433bb1692491f8
Author: A Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-18 14:16:11 -0400
Commit message:
Add GenomeInfoDb
Package: scRNAseqApp
Commit: 233b0259bd2badc69f9d89153793be7f95752d9f
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-18 12:53:32 -0400
Commit message:
Commit: 233b0259bd2badc69f9d89153793be7f95752d9f
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-18 12:53:32 -0400
Commit message:
fix a typo.
Package: CytoGLMM
Commit: 0e42cf77a715a26c3aa7339b5d14caca585881ba
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-18 18:39:05 +0200
Commit message:
Commit: 0e42cf77a715a26c3aa7339b5d14caca585881ba
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-18 18:39:05 +0200
Commit message:
modified text in vignette
Package: rhdf5
Commit: 5718d424cf96202db679655bb170fc17eba80819
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-07-18 15:53:04 +0200
Commit message:
Commit: 5718d424cf96202db679655bb170fc17eba80819
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-07-18 15:53:04 +0200
Commit message:
version bump
Package: rhdf5
Commit: cc576571dc1acff312e57202f42df08d35bfc4d9
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-07-18 13:57:41 +0200
Commit message:
Commit: cc576571dc1acff312e57202f42df08d35bfc4d9
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-07-18 13:57:41 +0200
Commit message:
Add H5Fget_intent()
Package: rhdf5
Commit: fced3affb2fbf979b6a5aa3dd88cae58e57ab922
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:32:31 +0200
Commit message:
Commit: fced3affb2fbf979b6a5aa3dd88cae58e57ab922
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:32:31 +0200
Commit message:
Merge pull request #161 from Huber-group-EMBL/H5Oget_info Add H5Oget_info()
Package: rhdf5
Commit: cf27d861ae1561be37558c53bf70c7f5a9e6cfef
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:45 +0200
Commit message:
Commit: cf27d861ae1561be37558c53bf70c7f5a9e6cfef
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:45 +0200
Commit message:
Update manual pages
Package: rhdf5
Commit: 23f6fe3eae3e3911f052e96f779fc489cbd754a2
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:10 +0200
Commit message:
Commit: 23f6fe3eae3e3911f052e96f779fc489cbd754a2
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:10 +0200
Commit message:
Version bump
Package: rhdf5
Commit: 19e348615db2d1cafe9186638a97adde1b6bef2a
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:02 +0200
Commit message:
Commit: 19e348615db2d1cafe9186638a97adde1b6bef2a
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:17:02 +0200
Commit message:
Update NEWS
Package: rhdf5
Commit: 9967dea6810ed019066d43ae7d20d30fd58a2dd3
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:11:33 +0200
Commit message:
Commit: 9967dea6810ed019066d43ae7d20d30fd58a2dd3
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-04 16:11:33 +0200
Commit message:
Add code for reading timestamps
Package: rhdf5
Commit: 493a444a1039b29caddca8fb501746048522903e
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-03 16:58:44 +0200
Commit message:
Commit: 493a444a1039b29caddca8fb501746048522903e
Author: Mike Smith <grimbough@gmail.com>
Date: 2025-06-03 16:58:44 +0200
Commit message:
Initial version of H50get_info
Package: topGO
Commit: c35a4c60d1845caf5c6607a3dfd53d3169fde409
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 14:19:37 +0200
Commit message:
Commit: c35a4c60d1845caf5c6607a3dfd53d3169fde409
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 14:19:37 +0200
Commit message:
Merge pull request #3 from federicomarini/vignette_renewal Vignette renewal
Package: topGO
Commit: 9491868069f767719b2b463724b2191ccee2eea4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 13:52:59 +0200
Commit message:
Commit: 9491868069f767719b2b463724b2191ccee2eea4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 13:52:59 +0200
Commit message:
links gonna link
Package: topGO
Commit: 0c1c4eea2524bc4f170574054149650cec35d780
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 13:52:52 +0200
Commit message:
Commit: 0c1c4eea2524bc4f170574054149650cec35d780
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-18 13:52:52 +0200
Commit message:
shortening up the text to avoid creation of extra variable
Package: topGO
Commit: 0916c83531ca8f9222f7d442fc0011919aee830e
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-08 15:14:22 +0200
Commit message:
Commit: 0916c83531ca8f9222f7d442fc0011919aee830e
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-08 15:14:22 +0200
Commit message:
avoiding too long lines in the examples and in the documentation to prevent the note being triggered
Package: topGO
Commit: ee4ceff0d5a5874fb01c470a2a544fadd57a1191
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 16:30:30 +0200
Commit message:
Commit: ee4ceff0d5a5874fb01c470a2a544fadd57a1191
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 16:30:30 +0200
Commit message:
temp disabling the BiocCheck, failing because of missing examples
Package: topGO
Commit: 951ac32ef042a85db3384916b05ceea5786ec9df
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:59:54 +0200
Commit message:
Commit: 951ac32ef042a85db3384916b05ceea5786ec9df
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:59:54 +0200
Commit message:
adding BiocStyle for the vignette format
Package: topGO
Commit: ca9f7d9166410686cc06346866a43403b6c158dc
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:59:20 +0200
Commit message:
Commit: ca9f7d9166410686cc06346866a43403b6c158dc
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:59:20 +0200
Commit message:
yep, using knitr and rmarkdown also in the Suggests: field
Package: topGO
Commit: cf33bebf7c3622adef8ae9602cb4ed77c10b92bf
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:58:52 +0200
Commit message:
Commit: cf33bebf7c3622adef8ae9602cb4ed77c10b92bf
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:58:52 +0200
Commit message:
using knitr for the vignette building
Package: topGO
Commit: 9d663b2152e0716d12ed9666080854020b8310a2
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:58:26 +0200
Commit message:
Commit: 9d663b2152e0716d12ed9666080854020b8310a2
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-07 15:58:26 +0200
Commit message:
removing the Sweave vignette
Package: topGO
Commit: 165ed3f85484ce834f75b839a0d7370e2cd1c7f4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:11:07 +0200
Commit message:
Commit: 165ed3f85484ce834f75b839a0d7370e2cd1c7f4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:11:07 +0200
Commit message:
removing pdf for the classes, replaced by the exported png image
Package: topGO
Commit: 7c12873b0c13b8d3f2a7f8eded22812055243fb8
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:10:50 +0200
Commit message:
Commit: 7c12873b0c13b8d3f2a7f8eded22812055243fb8
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:10:50 +0200
Commit message:
removing marks images, replaced by the emoji codes :)
Package: topGO
Commit: 1236c4ec7362825f218d23bdeebac666dd6acf44
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:10:01 +0200
Commit message:
Commit: 1236c4ec7362825f218d23bdeebac666dd6acf44
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:10:01 +0200
Commit message:
Merge branch 'vignette_renewal' of github.com:federicomarini/topGO into vignette_renewal
Package: topGO
Commit: 9ce985c8addf05325464dbdc4f3a54c4b720934f
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:09:00 +0200
Commit message:
Commit: 9ce985c8addf05325464dbdc4f3a54c4b720934f
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:09:00 +0200
Commit message:
so, wrapping text into the limit to have it displayed in a more pleasant way
Package: topGO
Commit: d3819324009a42e0394dcbd9c786c1fc5daa5a52
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:04:58 +0200
Commit message:
Commit: d3819324009a42e0394dcbd9c786c1fc5daa5a52
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:04:58 +0200
Commit message:
finishing up the rest of the sections, printing directly from the plot functions
Package: topGO
Commit: ea36a0ff55c56c99cc08badc1ef63d765503070b
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:04:35 +0200
Commit message:
Commit: ea36a0ff55c56c99cc08badc1ef63d765503070b
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 15:04:35 +0200
Commit message:
added extra missing citation (?)
Package: topGO
Commit: 1376a9fcdb8c0192a0020814892713b36cdeb9f0
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 14:17:35 +0200
Commit message:
Commit: 1376a9fcdb8c0192a0020814892713b36cdeb9f0
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 14:17:35 +0200
Commit message:
should be done until section 6, fully
Package: topGO
Commit: 5770de1d5a87a2fccd38b239765680b54491303c
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 09:19:25 +0200
Commit message:
Commit: 5770de1d5a87a2fccd38b239765680b54491303c
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-06 09:19:25 +0200
Commit message:
rework done till fully finished section 4, plus some edits ahead
Package: topGO
Commit: 790add2d337d5c588cbbb7621682014bfba6d733
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:38:59 +0200
Commit message:
Commit: 790add2d337d5c588cbbb7621682014bfba6d733
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:38:59 +0200
Commit message:
on the way to the full vignette, done till section 3.2
Package: topGO
Commit: 53066c3fb9e6ee7b693299c898eaa01ab926887e
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:38:21 +0200
Commit message:
Commit: 53066c3fb9e6ee7b693299c898eaa01ab926887e
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:38:21 +0200
Commit message:
yaml and intro fixed
Package: topGO
Commit: 33ff7c5a681902b53d185eda486d3e5fd1b1001a
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:37:59 +0200
Commit message:
Commit: 33ff7c5a681902b53d185eda486d3e5fd1b1001a
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:37:59 +0200
Commit message:
consistent 2-spaces spacing in the DESCRIPTION
Package: topGO
Commit: 77c141ffb8220f28a8a31798cb5d68b7b518919d
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:37:39 +0200
Commit message:
Commit: 77c141ffb8220f28a8a31798cb5d68b7b518919d
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-04 18:37:39 +0200
Commit message:
updating biocViews
Package: topGO
Commit: a10ca59c47cdbcf016ff298ae877f71687de6ed6
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:49:39 +0200
Commit message:
Commit: a10ca59c47cdbcf016ff298ae877f71687de6ed6
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:49:39 +0200
Commit message:
takeing -> taking
Package: topGO
Commit: 45c2fa5bb935299bd760697721c21e65dbaa00bd
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:49:07 +0200
Commit message:
Commit: 45c2fa5bb935299bd760697721c21e65dbaa00bd
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:49:07 +0200
Commit message:
Added a NEWS file with some preliminary entries
Package: topGO
Commit: 10cb1b072d69f65a38dd727b67f51e595f0f1529
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:48:44 +0200
Commit message:
Commit: 10cb1b072d69f65a38dd727b67f51e595f0f1529
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:48:44 +0200
Commit message:
few more typos from the (newer, ported) vignette
Package: topGO
Commit: 18580fb8c564a24f7c055f17fcff3f4e05ee0a03
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:47:51 +0200
Commit message:
Commit: 18580fb8c564a24f7c055f17fcff3f4e05ee0a03
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:47:51 +0200
Commit message:
added URL and BugReports address to simplify maintenance
Package: topGO
Commit: 0857e19c7c11db803d072c1e91b9d78ee3e16637
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:47:31 +0200
Commit message:
Commit: 0857e19c7c11db803d072c1e91b9d78ee3e16637
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:47:31 +0200
Commit message:
added Encoding entry in the Description file to allow for ö/ü in the authors' names
Package: topGO
Commit: 71d2e23e0e0a3bc2a3ccbf5381d9f083d394d5c9
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:46:30 +0200
Commit message:
Commit: 71d2e23e0e0a3bc2a3ccbf5381d9f083d394d5c9
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-07-03 07:46:30 +0200
Commit message:
some typos fixed as spotted in a full pass
Package: topGO
Commit: ae8a107692d839079133a08a85bc2b3c830896d9
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:55:03 +0200
Commit message:
Commit: ae8a107692d839079133a08a85bc2b3c830896d9
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:55:03 +0200
Commit message:
Merge pull request #2 from federicomarini/lady_ghagha Lady ghagha
Package: topGO
Commit: 42d8d914646c4b8dfc312919f63ea02a4fb49468
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:54:17 +0200
Commit message:
Commit: 42d8d914646c4b8dfc312919f63ea02a4fb49468
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:54:17 +0200
Commit message:
using authors@R to specify roles as required in BiocCheck
Package: topGO
Commit: 0f99770d303f630e44061f3b5406832d5d53abfe
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:49:31 +0200
Commit message:
Commit: 0f99770d303f630e44061f3b5406832d5d53abfe
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:49:31 +0200
Commit message:
added (empty so far) news file
Package: topGO
Commit: 7d47dac1569349cb9bb2561ee22752f779b1a8d4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:49:18 +0200
Commit message:
Commit: 7d47dac1569349cb9bb2561ee22752f779b1a8d4
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:49:18 +0200
Commit message:
added .Rbuildignore
Package: topGO
Commit: 1c5176d2eb4d8ef9fa139b0b2fda59f2f2a0b8fb
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:38:24 +0200
Commit message:
Commit: 1c5176d2eb4d8ef9fa139b0b2fda59f2f2a0b8fb
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:38:24 +0200
Commit message:
added readme with minimal content and badge
Package: topGO
Commit: 659890de371212c70298da7dd74c9cd2c39fd30c
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:38:12 +0200
Commit message:
Commit: 659890de371212c70298da7dd74c9cd2c39fd30c
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:38:12 +0200
Commit message:
first good stub at setting up the GHA
Package: topGO
Commit: 0763c3062b9371be225c8a173998e1ef87d7731a
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:21:14 +0200
Commit message:
Commit: 0763c3062b9371be225c8a173998e1ef87d7731a
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:21:14 +0200
Commit message:
cleanup of the bibtex file
Package: topGO
Commit: e2b20d9ef9c75060c6f5d13c4707ebf6f03c41bd
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:21:01 +0200
Commit message:
Commit: e2b20d9ef9c75060c6f5d13c4707ebf6f03c41bd
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:21:01 +0200
Commit message:
making session info section unnumbered
Package: topGO
Commit: 8159b669a97d7acb158890cba2bb9b1d2df480e6
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:20:48 +0200
Commit message:
Commit: 8159b669a97d7acb158890cba2bb9b1d2df480e6
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:20:48 +0200
Commit message:
remaking the yml (actually from the scratch)
Package: topGO
Commit: 959041336bb2865ef514d3653852209fa50f9116
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:20:00 +0200
Commit message:
Commit: 959041336bb2865ef514d3653852209fa50f9116
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:20:00 +0200
Commit message:
results set to "hide" where needed, and removed occurrency of forcing them to tex
Package: topGO
Commit: 8fe39ee23be32610aeaf8f1cba2c8707b87f35ab
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:18:16 +0200
Commit message:
Commit: 8fe39ee23be32610aeaf8f1cba2c8707b87f35ab
Author: Federico Marini <marinif@uni-mainz.de>
Date: 2025-06-23 23:18:16 +0200
Commit message:
added a very first draft, created via mdsr::Rnw2Rmd
Package: bettr
Commit: 027d08835f6b15e285480e76b74f881f36d16b1e
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 13:04:21 +0200
Commit message:
Commit: 027d08835f6b15e285480e76b74f881f36d16b1e
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 13:04:21 +0200
Commit message:
Bump version and update NEWS
Package: bettr
Commit: bc0cdd4991524d6bcb51f1f1f7668ce52dbf5112
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 13:03:28 +0200
Commit message:
Commit: bc0cdd4991524d6bcb51f1f1f7668ce52dbf5112
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 13:03:28 +0200
Commit message:
Use expect_true(is_ggplot(.)) instead of expect_s3_class(., "ggplot")
Package: treeclimbR
Commit: 88e3b059973ebfd984397a62ef01c1444ac1af5a
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 11:35:35 +0200
Commit message:
Commit: 88e3b059973ebfd984397a62ef01c1444ac1af5a
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 11:35:35 +0200
Commit message:
Force install TSE
Package: treeclimbR
Commit: 13765e2e7a20702747b3cf8a8d16f23a774a3769
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:26:14 +0200
Commit message:
Commit: 13765e2e7a20702747b3cf8a8d16f23a774a3769
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:26:14 +0200
Commit message:
Bump GHA cache version
Package: treeclimbR
Commit: d1998d8aae11c98d907bbaebdd4682e0e047fade
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:26:03 +0200
Commit message:
Commit: d1998d8aae11c98d907bbaebdd4682e0e047fade
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:26:03 +0200
Commit message:
Fix test
Package: microbiome
Commit: 5292415c787a3666f6045564fa4292a9e7404d88
Author: antagomir <leo.lahti@iki.fi>
Date: 2025-07-18 12:20:36 +0300
Commit message:
Commit: 5292415c787a3666f6045564fa4292a9e7404d88
Author: antagomir <leo.lahti@iki.fi>
Date: 2025-07-18 12:20:36 +0300
Commit message:
v bumo
Package: microbiome
Commit: 1709afafe5cac346a37e9a3f9544c179b4b30466
Author: antagomir <leo.lahti@iki.fi>
Date: 2025-07-17 22:39:53 +0300
Commit message:
Commit: 1709afafe5cac346a37e9a3f9544c179b4b30466
Author: antagomir <leo.lahti@iki.fi>
Date: 2025-07-17 22:39:53 +0300
Commit message:
fix
Package: microbiome
Commit: 497576a6380bbe2334c09086ae9fcc374da59fc7
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:37:58 +0200
Commit message:
Commit: 497576a6380bbe2334c09086ae9fcc374da59fc7
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:37:58 +0200
Commit message:
tests ok
Package: microbiome
Commit: f2bdcbc75b79ce431b06d64fa62fdb8467abf5dd
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:35:01 +0200
Commit message:
Commit: f2bdcbc75b79ce431b06d64fa62fdb8467abf5dd
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:35:01 +0200
Commit message:
ok
Package: microbiome
Commit: 85bb2368ab12858ed75ae4159655d852015af7ad
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2024-12-07 13:34:01 +0200
Commit message:
Commit: 85bb2368ab12858ed75ae4159655d852015af7ad
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2024-12-07 13:34:01 +0200
Commit message:
Merge pull request #224 from robbueck/fix/merge_taxa_2_correct Fix: taxa naming in merge_taxa2, see issue 223
Package: microbiome
Commit: 5ddd3a175984cdc22d4bd6721d4f9c42323620ba
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:33:39 +0200
Commit message:
Commit: 5ddd3a175984cdc22d4bd6721d4f9c42323620ba
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 13:33:39 +0200
Commit message:
deleted GHA
Package: microbiome
Commit: c174d71fa1a6d117038adc7fc98d5b59b6464aeb
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 12:49:21 +0200
Commit message:
Commit: c174d71fa1a6d117038adc7fc98d5b59b6464aeb
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 12:49:21 +0200
Commit message:
workflow update ok
Package: microbiome
Commit: 8c78070d9e308c058bd7c7b36606b56e5d6b954f
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 12:40:25 +0200
Commit message:
Commit: 8c78070d9e308c058bd7c7b36606b56e5d6b954f
Author: antagomir <leo.lahti@iki.fi>
Date: 2024-12-07 12:40:25 +0200
Commit message:
workflow update
Package: microbiome
Commit: 89e33324d9852f92989a7edffc0d700d89d6ebd3
Author: Bücking <rbuecki@cl-forslund10.mdc-berlin.net>
Date: 2024-12-02 14:53:46 +0100
Commit message:
Commit: 89e33324d9852f92989a7edffc0d700d89d6ebd3
Author: Bücking <rbuecki@cl-forslund10.mdc-berlin.net>
Date: 2024-12-02 14:53:46 +0100
Commit message:
Fix: taxa naming in merge_taxa2, see issue 223
Package: microbiome
Commit: 4202f6bef33d585d148b0251294a159383c245f4
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-08-04 12:24:31 +0300
Commit message:
Commit: 4202f6bef33d585d148b0251294a159383c245f4
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-08-04 12:24:31 +0300
Commit message:
Merge pull request #216 from plasde/patch-1 added sep argument in read_biom2phyloseq.R
Package: microbiome
Commit: 32d25919ba77ebb849b01408214801a2aa7a0d68
Author: plasde <d.w.k.van.der.plas@acta.nl>
Date: 2023-07-27 10:02:38 +0200
Commit message:
Commit: 32d25919ba77ebb849b01408214801a2aa7a0d68
Author: plasde <d.w.k.van.der.plas@acta.nl>
Date: 2023-07-27 10:02:38 +0200
Commit message:
Merge branch 'origin/sep-arg' into patch-1
Package: microbiome
Commit: 684ca792d13d1d1aa1b6130a2b09e1cd03d678f5
Author: plasde <d.w.k.van.der.plas@acta.nl>
Date: 2023-07-27 10:01:59 +0200
Commit message:
Commit: 684ca792d13d1d1aa1b6130a2b09e1cd03d678f5
Author: plasde <d.w.k.van.der.plas@acta.nl>
Date: 2023-07-27 10:01:59 +0200
Commit message:
added sep argument in read_biom2phyloseq.R
Package: microbiome
Commit: e7f46efb9f7385bcfce1c8baae9f781210f68ffc
Author: Derek van der Plas <69579002+plasde@users.noreply.github.com>
Date: 2023-07-25 17:21:04 +0200
Commit message:
Commit: e7f46efb9f7385bcfce1c8baae9f781210f68ffc
Author: Derek van der Plas <69579002+plasde@users.noreply.github.com>
Date: 2023-07-25 17:21:04 +0200
Commit message:
added sep argument in read_biom2phyloseq.R This only applies for meta-data as separator is irrelevant for BIOM files.
Package: microbiome
Commit: 62f05120b05fdcbee4da741591f1946d28714355
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-06-01 00:00:57 +0300
Commit message:
Commit: 62f05120b05fdcbee4da741591f1946d28714355
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-06-01 00:00:57 +0300
Commit message:
Merge pull request #214 from microbiome/clr Clr
Package: microbiome
Commit: efb379da8b9f0582e21c134e567b2e3360fbdbc7
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:21:08 +0300
Commit message:
Commit: efb379da8b9f0582e21c134e567b2e3360fbdbc7
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:21:08 +0300
Commit message:
removed comp from clr
Package: microbiome
Commit: 1ae0a980e61292f48c9e3d4e6c9bd662f04820b2
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:14:36 +0300
Commit message:
Commit: 1ae0a980e61292f48c9e3d4e6c9bd662f04820b2
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:14:36 +0300
Commit message:
removed compositional transformation as part of clr
Package: microbiome
Commit: 22b0b811d2873c20d92b9217340eba19947aa16b
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:13:04 +0300
Commit message:
Commit: 22b0b811d2873c20d92b9217340eba19947aa16b
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:13:04 +0300
Commit message:
Merge remote-tracking branch 'origin/master'
Package: microbiome
Commit: 6e7ee01c42559b2b3b629ee53cae67a5f24f3910
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:12:54 +0300
Commit message:
Commit: 6e7ee01c42559b2b3b629ee53cae67a5f24f3910
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-05-31 20:12:54 +0300
Commit message:
clr
Package: microbiome
Commit: 650ab74590ee9916f92ef0e1a721746d2e26bcfe
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-03-20 22:52:56 +0200
Commit message:
Commit: 650ab74590ee9916f92ef0e1a721746d2e26bcfe
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-03-20 22:52:56 +0200
Commit message:
Merge pull request #207 from Daenarys8/main Fix additonal typo in packages method functions
Package: microbiome
Commit: cf155ee542cc6206aa15697010b3fd36e76d3e3a
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 20:45:59 +0200
Commit message:
Commit: cf155ee542cc6206aa15697010b3fd36e76d3e3a
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 20:45:59 +0200
Commit message:
ok
Package: microbiome
Commit: b7a5cc25e0ae5bb4cd90a11afb96bb3a735757b4
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 20:11:03 +0200
Commit message:
Commit: b7a5cc25e0ae5bb4cd90a11afb96bb3a735757b4
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 20:11:03 +0200
Commit message:
ok
Package: microbiome
Commit: f86feebc98e7d46108d102181a478fbb79085473
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 14:48:22 +0200
Commit message:
Commit: f86feebc98e7d46108d102181a478fbb79085473
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 14:48:22 +0200
Commit message:
ok
Package: microbiome
Commit: de0c20028f9031fe982baec2889a1ca1acc48643
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 14:07:12 +0200
Commit message:
Commit: de0c20028f9031fe982baec2889a1ca1acc48643
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 14:07:12 +0200
Commit message:
ok
Package: microbiome
Commit: e98602599432a6b1e04245f1f92868c5ad5d987e
Author: Daenarys8 <127390183+Daenarys8@users.noreply.github.com>
Date: 2023-03-14 13:01:26 +0100
Commit message:
Commit: e98602599432a6b1e04245f1f92868c5ad5d987e
Author: Daenarys8 <127390183+Daenarys8@users.noreply.github.com>
Date: 2023-03-14 13:01:26 +0100
Commit message:
Merge branch 'microbiome:master' into main
Package: microbiome
Commit: 61bf806d256eb9c330332b3648ab3c4b23534ce0
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 13:01:21 +0100
Commit message:
Commit: 61bf806d256eb9c330332b3648ab3c4b23534ce0
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 13:01:21 +0100
Commit message:
Merge branch 'main' of github.com:Daenarys8/microbiome Signed-off-by: Daenarys8 <rysdaena8@gmail.com>
Package: microbiome
Commit: dbf97847e1c0fa7f7b02b13ebd4b2f12a909f89f
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 13:59:24 +0200
Commit message:
Commit: dbf97847e1c0fa7f7b02b13ebd4b2f12a909f89f
Author: antagomir <leo.lahti@iki.fi>
Date: 2023-03-14 13:59:24 +0200
Commit message:
test GHA
Package: microbiome
Commit: 710cdbc69a0fd43dfcb803c5637bf4c54023ad5d
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 12:39:47 +0100
Commit message:
Commit: 710cdbc69a0fd43dfcb803c5637bf4c54023ad5d
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 12:39:47 +0100
Commit message:
Fix typos in packages method functions Signed-off-by: Daenarys8 <rysdaena8@gmail.com>
Package: microbiome
Commit: 813e4216bb62e9bab60d7c6dd5d8e6f4d109431e
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-03-14 13:47:54 +0200
Commit message:
Commit: 813e4216bb62e9bab60d7c6dd5d8e6f4d109431e
Author: Leo Lahti <leo.lahti@iki.fi>
Date: 2023-03-14 13:47:54 +0200
Commit message:
Merge pull request #206 from Daenarys8/main Fix typos in packages method functions
Package: microbiome
Commit: d7610fae92d5b821cabf2a23764212a561c7f09f
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 12:39:47 +0100
Commit message:
Commit: d7610fae92d5b821cabf2a23764212a561c7f09f
Author: Daenarys8 <rysdaena8@gmail.com>
Date: 2023-03-14 12:39:47 +0100
Commit message:
Fix typos in packages method functions Signed-off-by: Daenarys8 <rysdaena8@gmail.com>
Package: Spectra
Commit: c61f646accceba319ea864b652d104d5f568fd8d
Author: Johannes Rainer <5506112+jorainer@users.noreply.github.com>
Date: 2025-07-18 11:04:45 +0200
Commit message:
Commit: c61f646accceba319ea864b652d104d5f568fd8d
Author: Johannes Rainer <5506112+jorainer@users.noreply.github.com>
Date: 2025-07-18 11:04:45 +0200
Commit message:
Merge pull request #361 from rformassspectrometry/phili fix `BPPARAM` parameter passing in `peaksData()`
Package: Spectra
Commit: fef6bd5086bb41df704c56254d4a9283ecfd822e
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:58:02 +0200
Commit message:
Commit: fef6bd5086bb41df704c56254d4a9283ecfd822e
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:58:02 +0200
Commit message:
fix version bump
Package: Spectra
Commit: 06dd9c5d62fefbbe42b2f23d42d0fbee3eb6ca31
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:57:27 +0200
Commit message:
Commit: 06dd9c5d62fefbbe42b2f23d42d0fbee3eb6ca31
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:57:27 +0200
Commit message:
Merge branch 'main' into phili
Package: Spectra
Commit: 0f37f42a1edfce555d8f1a639d518ed1a941a2cf
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:51:39 +0200
Commit message:
Commit: 0f37f42a1edfce555d8f1a639d518ed1a941a2cf
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-18 08:51:39 +0200
Commit message:
fix bpparam parameter passing.
Package: TFEA.ChIP
Commit: 2205e6cb8a3b7fa85e283b81a5c1a324f2581896
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-16 10:27:19 +0200
Commit message:
Commit: 2205e6cb8a3b7fa85e283b81a5c1a324f2581896
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-16 10:27:19 +0200
Commit message:
changed R version
Package: TFEA.ChIP
Commit: 081f5d1927e1df330fa2f756837d26fff1f33875
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-15 16:46:13 +0200
Commit message:
Commit: 081f5d1927e1df330fa2f756837d26fff1f33875
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-15 16:46:13 +0200
Commit message:
change vignette and names
Package: treeclimbR
Commit: 1d4ba33baf46fe21c34368494902dc5aa6453262
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:05:54 +0200
Commit message:
Commit: 1d4ba33baf46fe21c34368494902dc5aa6453262
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:05:54 +0200
Commit message:
Use expect_true(is_ggplot(.)) instead of expect_s3_class(., "ggplot")
Package: treeclimbR
Commit: 912d78684c121f0e951ce42ac5c6f5a28d1797b8
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:04:48 +0200
Commit message:
Commit: 912d78684c121f0e951ce42ac5c6f5a28d1797b8
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:04:48 +0200
Commit message:
Bump version, update NEWS
Package: treeclimbR
Commit: 0b6e2b0d09351042228d0565345a9cc40eb0530e
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:04:05 +0200
Commit message:
Commit: 0b6e2b0d09351042228d0565345a9cc40eb0530e
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:04:05 +0200
Commit message:
Clean up messages in tests
Package: treeclimbR
Commit: a2849fc1b41131b7709d8998cfa84c1ddccddb36
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:00:34 +0200
Commit message:
Commit: a2849fc1b41131b7709d8998cfa84c1ddccddb36
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:00:34 +0200
Commit message:
Only print message if message=TRUE
Package: treeclimbR
Commit: eec9a5493bc498ec05a140d55287b4757388e718
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:00:02 +0200
Commit message:
Commit: eec9a5493bc498ec05a140d55287b4757388e718
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-18 10:00:02 +0200
Commit message:
Add GenomeInfoDb to Suggests
Package: scifer
Commit: 32aa72788b4dfd71aa55d9d47c9f6ebad1e04051
Author: Rodrigo Arcoverde <rodrigo.arcoverdi@gmail.com>
Date: 2025-07-18 09:46:50 +0200
Commit message:
Commit: 32aa72788b4dfd71aa55d9d47c9f6ebad1e04051
Author: Rodrigo Arcoverde <rodrigo.arcoverdi@gmail.com>
Date: 2025-07-18 09:46:50 +0200
Commit message:
Updates package version to 1.11.5 Increments the package version number in the DESCRIPTION file.
Package: pathMED
Commit: f5853fdb128740fe062ea445e00305aa899255b6
Author: jordimartorell <jmartorellm@gmail.com>
Date: 2025-07-18 09:28:36 +0200
Commit message:
Commit: f5853fdb128740fe062ea445e00305aa899255b6
Author: jordimartorell <jmartorellm@gmail.com>
Date: 2025-07-18 09:28:36 +0200
Commit message:
Minor fix for varImp
Package: SparseArray
Commit: 0a2c62a32979b9bc89499621bddb5a8e8520a568
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 22:10:47 -0700
Commit message:
Commit: 0a2c62a32979b9bc89499621bddb5a8e8520a568
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 22:10:47 -0700
Commit message:
SparseArray 1.9.1 subassign_Array_by_Lindex() methods for SVT_SparseArray and NaArray objects now support a long Lindex.
Package: TVTB
Commit: 155fa9d238563e11c1a3334beef00eaf96c06def
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 17:31:15 -0700
Commit message:
Commit: 155fa9d238563e11c1a3334beef00eaf96c06def
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 17:31:15 -0700
Commit message:
TVTB 1.35.1: Import Seqinfo instead of GenomeInfoDb
Package: InteractionSet
Commit: be789c60bd5b67511b039b31e839415dc9168f3b
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:15:02 -0700
Commit message:
Commit: be789c60bd5b67511b039b31e839415dc9168f3b
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:15:02 -0700
Commit message:
Fixed the copy-pasta from the README's title.
Package: InteractionSet
Commit: 9be5a52790a43dec2a894c73b93f09ea34d50d88
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:11:49 -0700
Commit message:
Commit: 9be5a52790a43dec2a894c73b93f09ea34d50d88
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:11:49 -0700
Commit message:
Added a README and a gitignore file.
Package: InteractionSet
Commit: da9af4dc5ab50893f312c7e98688a426a3b70056
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:02:11 -0700
Commit message:
Commit: da9af4dc5ab50893f312c7e98688a426a3b70056
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-17 17:02:11 -0700
Commit message:
Cleaned up the manpages, mostly for the links.
Package: InteractionSet
Commit: 24462598d42af6bbae47eb74aa1ba4f7ec7e741f
Author: Jacques Serizay <jacquesserizay@gmail.com>
Date: 2025-07-18 00:04:12 +0200
Commit message:
Commit: 24462598d42af6bbae47eb74aa1ba4f7ec7e741f
Author: Jacques Serizay <jacquesserizay@gmail.com>
Date: 2025-07-18 00:04:12 +0200
Commit message:
Add `Seqinfo` to dependencies and export `seqinfo` methods (#12)
Package: crisprDesign
Commit: eb7b7dec05111a02a006cd66eef4a7ac90c4a79e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 17:07:40 -0700
Commit message:
Commit: eb7b7dec05111a02a006cd66eef4a7ac90c4a79e
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 17:07:40 -0700
Commit message:
crisprDesign 1.11.1: Resync with Seqinfo/GenomeInfoDb split
Package: GenomicFiles
Commit: d17cb180c1c0f93b53110b749668be75ef978c66
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 16:08:19 -0700
Commit message:
Commit: d17cb180c1c0f93b53110b749668be75ef978c66
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 16:08:19 -0700
Commit message:
GenomicFiles 1.45.1: Add Seqinfo to Imports
Package: GenomeInfoDb
Commit: cdeba7c872de33645d65fe930caf49745ca12e9c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 15:13:57 -0700
Commit message:
Commit: cdeba7c872de33645d65fe930caf49745ca12e9c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2025-07-17 15:13:57 -0700
Commit message:
GenomeInfoDb 1.45.8 Update mapping between UCSC genome dm3 and NCBI Genome assembly Release 5.
Package: sosta
Commit: 9c2fd547dd4a51dbf16f800413d0fe785dd151af
Author: sgunz <samuel.gunz@uzh.ch>
Date: 2025-07-17 17:50:30 -0400
Commit message:
Commit: 9c2fd547dd4a51dbf16f800413d0fe785dd151af
Author: sgunz <samuel.gunz@uzh.ch>
Date: 2025-07-17 17:50:30 -0400
Commit message:
version bump in release
Package: sosta
Commit: 1e567d7f893280ef2b577c3a6d046506a6a0f884
Author: sgunz <samuel.gunz@uzh.ch>
Date: 2025-07-17 17:45:39 -0400
Commit message:
Commit: 1e567d7f893280ef2b577c3a6d046506a6a0f884
Author: sgunz <samuel.gunz@uzh.ch>
Date: 2025-07-17 17:45:39 -0400
Commit message:
fix: fix assign cells to structures
Package: BreastSubtypeR
Commit: 1ef57ab421851bf1680f810071fc8e97f2a7dd8e
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 22:39:55 +0200
Commit message:
Commit: 1ef57ab421851bf1680f810071fc8e97f2a7dd8e
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 22:39:55 +0200
Commit message:
Fix: added BiocStyle to Suggests for vignette build
Package: iCOBRA
Commit: 1b0a5f8d908d30e75c915a6cba50afee126c45f9
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:13:47 +0200
Commit message:
Commit: 1b0a5f8d908d30e75c915a6cba50afee126c45f9
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:13:47 +0200
Commit message:
Bump version and update NEWS
Package: iCOBRA
Commit: d5d0ae32fa028fcdc91f3544db217a6ece4b4cf9
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:12:33 +0200
Commit message:
Commit: d5d0ae32fa028fcdc91f3544db217a6ece4b4cf9
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:12:33 +0200
Commit message:
Reoxygenize
Package: iCOBRA
Commit: f099994fa15e4f70c9dd51f482bcaed7365888be
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:12:18 +0200
Commit message:
Commit: f099994fa15e4f70c9dd51f482bcaed7365888be
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:12:18 +0200
Commit message:
Use .data to clear R CMD check notes
Package: iCOBRA
Commit: 32b7e0e286c2e71217ca560fc8b15b3ddc40a3cc
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:09:27 +0200
Commit message:
Commit: 32b7e0e286c2e71217ca560fc8b15b3ddc40a3cc
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 22:09:27 +0200
Commit message:
Add markdown to Suggests
Package: iCOBRA
Commit: bf9a92c07591a084327224a6b0cbda467c57bbc6
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:32:26 +0200
Commit message:
Commit: bf9a92c07591a084327224a6b0cbda467c57bbc6
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:32:26 +0200
Commit message:
Remove markdown from Imports
Package: iCOBRA
Commit: f618c7c22e6811ef820ce00a8dee6706f75e033b
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:32:13 +0200
Commit message:
Commit: f618c7c22e6811ef820ce00a8dee6706f75e033b
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:32:13 +0200
Commit message:
Use expect_true(is_ggplot(.)) instead of expect_is(., "ggplot")
Package: countsimQC
Commit: d589d00e19aacb1a8ac5cb488326bbd8c15d5140
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:20:11 +0200
Commit message:
Commit: d589d00e19aacb1a8ac5cb488326bbd8c15d5140
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:20:11 +0200
Commit message:
Revert to old data set
Package: countsimQC
Commit: b4f976069b9cbb6e5771c3af7dfd591f9023bc73
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:08:00 +0200
Commit message:
Commit: b4f976069b9cbb6e5771c3af7dfd591f9023bc73
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 21:08:00 +0200
Commit message:
Add Seqinfo to Suggests
Package: countsimQC
Commit: bcfaebf203aeab706b9aadcedf57f6b40576e437
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 20:59:50 +0200
Commit message:
Commit: bcfaebf203aeab706b9aadcedf57f6b40576e437
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 20:59:50 +0200
Commit message:
Update example data
Package: AnVIL
Commit: 727d33f27998cc454307122cef0269b16a74827c
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:33:26 -0400
Commit message:
Commit: 727d33f27998cc454307122cef0269b16a74827c
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:33:26 -0400
Commit message:
version bump 1.21.8
Package: AnVIL
Commit: a29bdd99b1d49d2573b828893086d2696e58fe8b
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:33:11 -0400
Commit message:
Commit: a29bdd99b1d49d2573b828893086d2696e58fe8b
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:33:11 -0400
Commit message:
update Dockstore API version to 1.17.1
Package: AnVILGCP
Commit: 09257cb400aba9dbcc1e5ce92641e1d2afbcd789
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:29:16 -0400
Commit message:
Commit: 09257cb400aba9dbcc1e5ce92641e1d2afbcd789
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:29:16 -0400
Commit message:
version bump 1.3.8
Package: AnVILGCP
Commit: ef09677b8e24b3b41be29c87365b733c512cc70f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:28:58 -0400
Commit message:
Commit: ef09677b8e24b3b41be29c87365b733c512cc70f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:28:58 -0400
Commit message:
add package anchor to link
Package: AnVILGCP
Commit: ebb0511316c88dc2d5e3ce376a129b87bf6cf4ab
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:13:44 -0400
Commit message:
Commit: ebb0511316c88dc2d5e3ce376a129b87bf6cf4ab
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:13:44 -0400
Commit message:
use .gsutil_do from GCPtools
Package: AnVILGCP
Commit: aae3b51123ab6c3522e75f0663132173a86c3800
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:12:28 -0400
Commit message:
Commit: aae3b51123ab6c3522e75f0663132173a86c3800
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:12:28 -0400
Commit message:
fix typo
Package: AnVILGCP
Commit: f4db027771369aca7d0029bf42c02ff30ab03de6
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:09:06 -0400
Commit message:
Commit: f4db027771369aca7d0029bf42c02ff30ab03de6
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:09:06 -0400
Commit message:
version bump 1.3.7
Package: AnVILGCP
Commit: 7c2f1c5ca474f7ff7e84075422069691a3b91a9b
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:08:56 -0400
Commit message:
Commit: 7c2f1c5ca474f7ff7e84075422069691a3b91a9b
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:08:56 -0400
Commit message:
use gsutil_requesterpays_flag
Package: GCPtools
Commit: a1206303a2e36d386ffe4585f3e54b7f095f7b49
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:04:05 -0400
Commit message:
Commit: a1206303a2e36d386ffe4585f3e54b7f095f7b49
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:04:05 -0400
Commit message:
version bump 0.99.2
Package: GCPtools
Commit: 822c23cdf470d960d4bd9063b16c17853285050f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:03:53 -0400
Commit message:
Commit: 822c23cdf470d960d4bd9063b16c17853285050f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:03:53 -0400
Commit message:
add gsutil_requesterpays_flag to vignette
Package: GCPtools
Commit: 3b122c4cb9e82ae48b8bff84e6172a78b9deab58
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:01:37 -0400
Commit message:
Commit: 3b122c4cb9e82ae48b8bff84e6172a78b9deab58
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-17 13:01:37 -0400
Commit message:
export gsutil_requesterpays_flag
Package: countsimQC
Commit: 9aaa602d7b2b3d02c3280749d1b2b28f7aa958c7
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:22:27 +0200
Commit message:
Commit: 9aaa602d7b2b3d02c3280749d1b2b28f7aa958c7
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:22:27 +0200
Commit message:
Bump version, update NEWS
Package: countsimQC
Commit: 611421f2ce9cae60ebb08b090459e17e11814adc
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:21:34 +0200
Commit message:
Commit: 611421f2ce9cae60ebb08b090459e17e11814adc
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:21:34 +0200
Commit message:
Add usage section to example data
Package: countsimQC
Commit: 788b577a4dfe7fcde3154f0e6322a2b4894fd948
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:20:31 +0200
Commit message:
Commit: 788b577a4dfe7fcde3154f0e6322a2b4894fd948
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:20:31 +0200
Commit message:
Update package documentation
Package: countsimQC
Commit: 80126e5bdda89acf2f780b36f9d58fdd25ad7477
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:19:44 +0200
Commit message:
Commit: 80126e5bdda89acf2f780b36f9d58fdd25ad7477
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:19:44 +0200
Commit message:
Use is_ggplot instead of is(, "ggplot")
Package: countsimQC
Commit: 4a03bcfcc4e7d89ee61ea991304fbd3a19db6e5f
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:18:46 +0200
Commit message:
Commit: 4a03bcfcc4e7d89ee61ea991304fbd3a19db6e5f
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 18:18:46 +0200
Commit message:
Update roxygen version
Package: countsimQC
Commit: cda47611c240d78feb8ca14ca02333fc349dc0d0
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-06-27 11:35:40 -0400
Commit message:
Commit: cda47611c240d78feb8ca14ca02333fc349dc0d0
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-06-27 11:35:40 -0400
Commit message:
Bump cache version on GHA
Package: BreastSubtypeR
Commit: df432cd0d76d347e6050d04738de75937f9f1a05
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 18:15:42 +0200
Commit message:
Commit: df432cd0d76d347e6050d04738de75937f9f1a05
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 18:15:42 +0200
Commit message:
Fix: added BiocStyle to Suggests for vignette build
Package: scifer
Commit: 50ef003f05ae04c13e0659eea044e2a7991b9fed
Author: Rodrigo Arcoverde <rodrigo.arcoverdi@gmail.com>
Date: 2025-07-17 18:13:50 +0200
Commit message:
Commit: 50ef003f05ae04c13e0659eea044e2a7991b9fed
Author: Rodrigo Arcoverde <rodrigo.arcoverdi@gmail.com>
Date: 2025-07-17 18:13:50 +0200
Commit message:
Ensures conda executable is found for igblast Adds a check to verify that the conda executable is found via `basilisk.utils::find()` before proceeding with igblast. This prevents errors when the conda environment is not properly set up and guides the user to install basilisk if needed. Also improves error messaging when igblast fails.
Package: BreastSubtypeR
Commit: 0c1124085f96eaea8fd11444ac652326cb100354
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 18:05:01 +0200
Commit message:
Commit: 0c1124085f96eaea8fd11444ac652326cb100354
Author: Qiao Yang <yq.kiuo@gmail.com>
Date: 2025-07-17 18:05:01 +0200
Commit message:
Bug fixes and improvements: version bump to 1.1.1
Package: Herper
Commit: 1df2695086e3e2f69221c5c60d975b9b4a7f8a76
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:37:04 -0400
Commit message:
Commit: 1df2695086e3e2f69221c5c60d975b9b4a7f8a76
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:37:04 -0400
Commit message:
version number
Package: Herper
Commit: f05135003c3d9900b40189629b1ae6b0823385b9
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:33:44 -0400
Commit message:
Commit: f05135003c3d9900b40189629b1ae6b0823385b9
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:33:44 -0400
Commit message:
namespace merge
Package: Herper
Commit: f801a4613bfbc8a7bb48f67f1a10954bdd30471b
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:26:04 -0400
Commit message:
Commit: f801a4613bfbc8a7bb48f67f1a10954bdd30471b
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2025-07-17 11:26:04 -0400
Commit message:
update namespace to add more details and add links to workpage
Package: Herper
Commit: c953b1ef44a317c5046f708a75894d7637d67d03
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 17:12:04 -0500
Commit message:
Commit: c953b1ef44a317c5046f708a75894d7637d67d03
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 17:12:04 -0500
Commit message:
list conda pkgs fix
Package: Herper
Commit: e0440bdc0aa77372b5bd2b6929bf95e0f06d44c9
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:44:02 -0500
Commit message:
Commit: e0440bdc0aa77372b5bd2b6929bf95e0f06d44c9
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:44:02 -0500
Commit message:
Merge pull request #26 from RockefellerUniversity/mamba Mamba
Package: Herper
Commit: dc7b88d2363ae8624dc6c84650317cac8eb28b59
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:43:21 -0500
Commit message:
Commit: dc7b88d2363ae8624dc6c84650317cac8eb28b59
Author: Matt Paul <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:43:21 -0500
Commit message:
Merge branch 'devel' into mamba
Package: Herper
Commit: 71c13158bd423e1e7e1cfd7d3a0f7fd571cc2fa3
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:52 -0500
Commit message:
Commit: 71c13158bd423e1e7e1cfd7d3a0f7fd571cc2fa3
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:52 -0500
Commit message:
mask some functions to remove memeory wieght
Package: Herper
Commit: 35ad858c314cc5464fd33e8345cae6ecf22fb592
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:38 -0500
Commit message:
Commit: 35ad858c314cc5464fd33e8345cae6ecf22fb592
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:38 -0500
Commit message:
update roxygen
Package: Herper
Commit: 052714977a6f90248988f10841ca57d26cfdf468
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:29 -0500
Commit message:
Commit: 052714977a6f90248988f10841ca57d26cfdf468
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:37:29 -0500
Commit message:
roxygenize
Package: Herper
Commit: db8e090575f7f183cdceb791c72eba1659d17eb3
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:31:50 -0500
Commit message:
Commit: db8e090575f7f183cdceb791c72eba1659d17eb3
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:31:50 -0500
Commit message:
fix edge case if the environment is empty for listing
Package: Herper
Commit: ea24971af02531f24148e123180f10e0d51db232
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:31:32 -0500
Commit message:
Commit: ea24971af02531f24148e123180f10e0d51db232
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-29 16:31:32 -0500
Commit message:
fix issue with import of conda env and add mamba
Package: Herper
Commit: fc257c1c3266a4478febced4e59f608f3c88a7f4
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-13 15:48:59 -0500
Commit message:
Commit: fc257c1c3266a4478febced4e59f608f3c88a7f4
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-13 15:48:59 -0500
Commit message:
version fix
Package: Herper
Commit: 4ed4a1be23dc4b9d203b733c6966942d38a3f36e
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-13 15:47:27 -0500
Commit message:
Commit: 4ed4a1be23dc4b9d203b733c6966942d38a3f36e
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2024-02-13 15:47:27 -0500
Commit message:
match the dev
Package: Herper
Commit: 1ca957179f51e5d2c4318fc34680b571c85a8686
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 14:16:16 -0400
Commit message:
Commit: 1ca957179f51e5d2c4318fc34680b571c85a8686
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 14:16:16 -0400
Commit message:
updated manuals for mamba
Package: Herper
Commit: 92955e36ba7a9387f60304c36678607704a7ee33
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 14:14:53 -0400
Commit message:
Commit: 92955e36ba7a9387f60304c36678607704a7ee33
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 14:14:53 -0400
Commit message:
add mamaba functionality
Package: Herper
Commit: d4d24ccce3eca98ff072c9570b3a08d1e6aee865
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 13:11:35 -0400
Commit message:
Commit: d4d24ccce3eca98ff072c9570b3a08d1e6aee865
Author: matthew-paul-2006 <matthew.paul.2006@gmail.com>
Date: 2023-07-06 13:11:35 -0400
Commit message:
path fix for arm64
Package: alevinQC
Commit: 11966d21a5b9d560e1852acf85327132fc910379
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 17:04:35 +0200
Commit message:
Commit: 11966d21a5b9d560e1852acf85327132fc910379
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 17:04:35 +0200
Commit message:
Bump version, update NEWS
Package: alevinQC
Commit: 1dd624cf44bc794804f4954007b070b3cdf1ec5c
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 17:03:32 +0200
Commit message:
Commit: 1dd624cf44bc794804f4954007b070b3cdf1ec5c
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-07-17 17:03:32 +0200
Commit message:
Use expect_true(is_ggplot(.)) instead of expect_s3_class(., "ggplot")
Package: scRNAseqApp
Commit: 7bf7b62f2982f9a2bd81d684bb2f840434b241ad
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-17 10:28:24 -0400
Commit message:
Commit: 7bf7b62f2982f9a2bd81d684bb2f840434b241ad
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-17 10:28:24 -0400
Commit message:
fix the multiple filters that not work for two value filter.
Package: ProteinGymR
Commit: facca2344507aae5c0645bc23a4830b906f959e7
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 14:25:49 +0000
Commit message:
Commit: facca2344507aae5c0645bc23a4830b906f959e7
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 14:25:49 +0000
Commit message:
bumped devel version
Package: ProteinGymR
Commit: b0f604dba1ccf1c114748924efb0c1ef349b35bd
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:49:49 +0000
Commit message:
Commit: b0f604dba1ccf1c114748924efb0c1ef349b35bd
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:49:49 +0000
Commit message:
Resolve merge conflict in DESCRIPTION
Package: ProteinGymR
Commit: d94b49f81a033bb262c87684c5f3254cb5d85298
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:46:49 +0000
Commit message:
Commit: d94b49f81a033bb262c87684c5f3254cb5d85298
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:46:49 +0000
Commit message:
Resolved merge conflicts and completed merge
Package: ProteinGymR
Commit: ebfd528a4436c90435affbbe88796b894ec6487d
Author: Tram Nguyen <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 09:39:15 -0400
Commit message:
Commit: ebfd528a4436c90435affbbe88796b894ec6487d
Author: Tram Nguyen <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 09:39:15 -0400
Commit message:
Merge branch 'RELEASE_3_21' into devel
Package: ProteinGymR
Commit: 492f20ca1d63a5c1200ef6bf1a1562706d07aa45
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:31:20 +0000
Commit message:
Commit: 492f20ca1d63a5c1200ef6bf1a1562706d07aa45
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-17 13:31:20 +0000
Commit message:
additional edits
Package: ProteinGymR
Commit: 7bbd8b75fc474896b390aafaccb6201a4e74caa9
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-08 12:12:44 +0000
Commit message:
Commit: 7bbd8b75fc474896b390aafaccb6201a4e74caa9
Author: tram-nguyen-n <tram_nguyen@hms.harvard.edu>
Date: 2025-07-08 12:12:44 +0000
Commit message:
bumped release version
Package: scDblFinder
Commit: c4e3ebce1f0dea0454dbaf81504b82e00fa4debc
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 15:22:00 +0200
Commit message:
Commit: c4e3ebce1f0dea0454dbaf81504b82e00fa4debc
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 15:22:00 +0200
Commit message:
fixed import and xgb v check error on recent r
Package: scDblFinder
Commit: 2440306376d704c659b375a9d61390375adfcdd4
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 14:56:34 +0200
Commit message:
Commit: 2440306376d704c659b375a9d61390375adfcdd4
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 14:56:34 +0200
Commit message:
removed breaking debug line!
Package: scDblFinder
Commit: d4eb7b6385b86412e85a40cb603b2d794300453f
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 14:51:10 +0200
Commit message:
Commit: d4eb7b6385b86412e85a40cb603b2d794300453f
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 14:51:10 +0200
Commit message:
fixed imports across xgb v
Package: scDblFinder
Commit: 0ee3650d9421b2fae3f141b3ebb8f71b29590199
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:58:43 +0200
Commit message:
Commit: 0ee3650d9421b2fae3f141b3ebb8f71b29590199
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:58:43 +0200
Commit message:
fixed clamulet for xgb>3
Package: scDblFinder
Commit: 30e802f40df75710aba1bf93b3cb84095bfd464b
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:33:37 +0200
Commit message:
Commit: 30e802f40df75710aba1bf93b3cb84095bfd464b
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:33:37 +0200
Commit message:
version bump, added news, #132
Package: scDblFinder
Commit: e5cfecaa7513bdcb54b739ac4244ab41bcf4eff3
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:32:42 +0200
Commit message:
Commit: e5cfecaa7513bdcb54b739ac4244ab41bcf4eff3
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:32:42 +0200
Commit message:
Merge branch 'devel' of git.bioconductor.org:packages/scDblFinder into devel
Package: scDblFinder
Commit: 29e5191ec507db16d3408cc825a580e262b1c785
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:31:14 +0200
Commit message:
Commit: 29e5191ec507db16d3408cc825a580e262b1c785
Author: plger <pl.germain@gmail.com>
Date: 2025-07-17 13:31:14 +0200
Commit message:
added support for xgboost >=3
Package: scDblFinder
Commit: 20e4d516de32d89e567284a08d2bd9156680824e
Author: plger <pl.germain@gmail.com>
Date: 2025-03-20 10:54:27 +0100
Commit message:
Commit: 20e4d516de32d89e567284a08d2bd9156680824e
Author: plger <pl.germain@gmail.com>
Date: 2025-03-20 10:54:27 +0100
Commit message:
Merge branch 'devel' of github.com:plger/scDblFinder into devel
Package: scDblFinder
Commit: 32e83a6c7613fc833dd4100903986d8ac03c417d
Author: Pierre-Luc <pl.germain@gmail.com>
Date: 2025-03-20 10:53:10 +0100
Commit message:
Commit: 32e83a6c7613fc833dd4100903986d8ac03c417d
Author: Pierre-Luc <pl.germain@gmail.com>
Date: 2025-03-20 10:53:10 +0100
Commit message:
Update README.md
Package: ISAnalytics
Commit: c131f232b88775129961554a44edb64edbb1cf14
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2025-07-09 14:12:53 +0200
Commit message:
Commit: c131f232b88775129961554a44edb64edbb1cf14
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2025-07-09 14:12:53 +0200
Commit message:
[U] Changed again color scale for alluvial_plot
Package: ISAnalytics
Commit: f24e62faf281eed41a02c1cc446d9c9b0c21285d
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2025-07-09 08:26:12 +0200
Commit message:
Commit: f24e62faf281eed41a02c1cc446d9c9b0c21285d
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2025-07-09 08:26:12 +0200
Commit message:
[UPDATE] Changed color scale for alluvial_plot and made some general updates.
Package: ISAnalytics
Commit: 08e291457198909e800bba6e98bc03bc02e5cda3
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2024-12-05 16:25:15 +0100
Commit message:
Commit: 08e291457198909e800bba6e98bc03bc02e5cda3
Author: francescogazzo <francesco.gazzo@gmail.com>
Date: 2024-12-05 16:25:15 +0100
Commit message:
prova
Package: ChemmineOB
Commit: 1a2a14b1e9fa0731fbd870e11841a14843eb1d30
Author: khoran <khoran@cs.ucr.edu>
Date: 2025-07-17 06:52:59 -0700
Commit message:
Commit: 1a2a14b1e9fa0731fbd870e11841a14843eb1d30
Author: khoran <khoran@cs.ucr.edu>
Date: 2025-07-17 06:52:59 -0700
Commit message:
forgot zlibbioc is no longer available at all. removed it again. not sure how to make windows build work
Package: Coralysis
Commit: 17a853a095555c436931c20751fe96c92f213479
Author: antonioggsousa <antonioggsousa@gmail.com>
Date: 2025-07-17 16:21:15 +0300
Commit message:
Commit: 17a853a095555c436931c20751fe96c92f213479
Author: antonioggsousa <antonioggsousa@gmail.com>
Date: 2025-07-17 16:21:15 +0300
Commit message:
implementing the 'label.prune.cutoff' parameter in the function 'ReferenceMapping()' to prune low-confidence predicted cell labels based on the confidence probability scores
Package: BgeeCall
Commit: bf562002d12494349807abde6a7ebdbffd2e666e
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-17 14:10:33 +0200
Commit message:
Commit: bf562002d12494349807abde6a7ebdbffd2e666e
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-17 14:10:33 +0200
Commit message:
removed explicite importFrom dplyr select to avoid override of the select funciton from AnnotationDbi
Package: Spectra
Commit: fad6749a149745cb0ff403103f8f1895f3c4a766
Author: Johannes Rainer <johannes.rainer@gmail.com>
Date: 2025-07-17 13:49:13 +0200
Commit message:
Commit: fad6749a149745cb0ff403103f8f1895f3c4a766
Author: Johannes Rainer <johannes.rainer@gmail.com>
Date: 2025-07-17 13:49:13 +0200
Commit message:
fix: bug in estimatePrecursorMz() ignoring parameter BPPARAM
Package: scp
Commit: bea4ec7b2af8fc46443c12e54283fbb2d6337b76
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 15:22:39 +0200
Commit message:
Commit: bea4ec7b2af8fc46443c12e54283fbb2d6337b76
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 15:22:39 +0200
Commit message:
docs: added scplainer to scp data modelling vignette
Package: scp
Commit: fd6a53638ec798e25d83549eb0990207f4e2f895
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 15:21:56 +0200
Commit message:
Commit: fd6a53638ec798e25d83549eb0990207f4e2f895
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 15:21:56 +0200
Commit message:
docs: explicitly mention scplainer in the man pages
Package: scp
Commit: 6f320a78872c3a6f45567e4c3f0bcd84d86dacda
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 13:48:48 +0200
Commit message:
Commit: 6f320a78872c3a6f45567e4c3f0bcd84d86dacda
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 13:48:48 +0200
Commit message:
Merge branch 'master' of github.com:UCLouvain-CBIO/scp
Package: scp
Commit: 047f986eeb257ff2152de47b6fa61ac3df493162
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 13:48:41 +0200
Commit message:
Commit: 047f986eeb257ff2152de47b6fa61ac3df493162
Author: cvanderaa <vanderaa.christophe@gmail.com>
Date: 2025-07-02 13:48:41 +0200
Commit message:
docs: explicitly mention scplainer in the man pages
Package: scp
Commit: b6586b29ca4133ad800e5b724a7648da37fbc222
Author: Laurent Gatto <lgatto@protonmail.ch>
Date: 2025-05-31 12:31:26 +0200
Commit message:
Commit: b6586b29ca4133ad800e5b724a7648da37fbc222
Author: Laurent Gatto <lgatto@protonmail.ch>
Date: 2025-05-31 12:31:26 +0200
Commit message:
new gh devel version
Package: BgeeCall
Commit: db80cf96f01e070057e7867c9b35411b781b6427
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-17 12:20:26 +0200
Commit message:
Commit: db80cf96f01e070057e7867c9b35411b781b6427
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-17 12:20:26 +0200
Commit message:
reorganize imports
Package: snifter
Commit: 99e9f4d6e0d68343c7d62b1eb46ca9cf8575b6d4
Author: Alan O'Callaghan <alan.ocallaghan@outlook.com>
Date: 2025-07-17 10:52:48 +0100
Commit message:
Commit: 99e9f4d6e0d68343c7d62b1eb46ca9cf8575b6d4
Author: Alan O'Callaghan <alan.ocallaghan@outlook.com>
Date: 2025-07-17 10:52:48 +0100
Commit message:
Bump version and update spec
Package: densvis
Commit: 7d2a35cca8d1e705efa72fc1acc37974081a2696
Author: Alan O'Callaghan <alan.ocallaghan@outlook.com>
Date: 2025-07-17 09:53:14 +0100
Commit message:
Commit: 7d2a35cca8d1e705efa72fc1acc37974081a2696
Author: Alan O'Callaghan <alan.ocallaghan@outlook.com>
Date: 2025-07-17 09:53:14 +0100
Commit message:
Try new env spec
Package: HiCExperiment
Commit: 470e80647d056b904d391e048f0cf378e87c115e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-17 08:50:14 +0200
Commit message:
Commit: 470e80647d056b904d391e048f0cf378e87c115e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-17 08:50:14 +0200
Commit message:
bumpt to 1.9.1
Package: HiCExperiment
Commit: 1c4a5729129b77c32b8e3c21c4b04f089c12c93e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 16:27:11 +0200
Commit message:
Commit: 1c4a5729129b77c32b8e3c21c4b04f089c12c93e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 16:27:11 +0200
Commit message:
fix: #15
Package: HiCool
Commit: 1422bc6334115255a5a0de661e202fa1d73875eb
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-17 08:50:36 +0200
Commit message:
Commit: 1422bc6334115255a5a0de661e202fa1d73875eb
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-17 08:50:36 +0200
Commit message:
bumpt to 1.9.1
Package: HiCool
Commit: baf839b21c85e798b9ba6503ff95c9f49475ceea
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 11:46:58 +0200
Commit message:
Commit: baf839b21c85e798b9ba6503ff95c9f49475ceea
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 11:46:58 +0200
Commit message:
fix: deps
Package: HiCool
Commit: 25e990ead220e4aeb2d3b9c5ca3c54f95d12f3d8
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-15 19:50:00 +0200
Commit message:
Commit: 25e990ead220e4aeb2d3b9c5ca3c54f95d12f3d8
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-15 19:50:00 +0200
Commit message:
doc: update
Package: HiCool
Commit: 02c95adabbe76da16c44cc5fada87b8a40d2218e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-15 19:35:30 +0200
Commit message:
Commit: 02c95adabbe76da16c44cc5fada87b8a40d2218e
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-15 19:35:30 +0200
Commit message:
fix: update after basilisk dropped bioconda packages
Package: COTAN
Commit: bb9a7305f1b10e7309449fe042b48a479af4d082
Author: trinetra75 <marco.fantozzi@gmail.com>
Date: 2025-07-15 19:06:23 +0200
Commit message:
Commit: bb9a7305f1b10e7309449fe042b48a479af4d082
Author: trinetra75 <marco.fantozzi@gmail.com>
Date: 2025-07-15 19:06:23 +0200
Commit message:
Updated NEWS.md and bumped-up version Fixed failing test
Package: COTAN
Commit: 2686b4453ae4bf9f9760ffcfa4693f431e7d2c4b
Author: Marco Fantozzi <57561972+trinetra75@users.noreply.github.com>
Date: 2025-07-15 17:50:56 +0200
Commit message:
Commit: 2686b4453ae4bf9f9760ffcfa4693f431e7d2c4b
Author: Marco Fantozzi <57561972+trinetra75@users.noreply.github.com>
Date: 2025-07-15 17:50:56 +0200
Commit message:
Bugfix: reduce memory foot print in functions (#122) * Reduced memory foot print of parameter solvers Reduced the function environment causing memory swelling Also simplified the loops structure * Parallelized also GDI calculations * Fixed minor issue * Fixed loggers * Added extra cells' UMAP plot in examples * Updated NEWS.md * Reduced memory foot-print of function `getDataMatrix()` Now the function avoid instantiating multiple matrices of the size of the original one. Also calculation are now split across multiple cores. * Extended paramters to function calling data reduction function * Fixed remaining bugs Made chunk division more uniform * Fixed remaining bugs * Changed slicing of function \n\nNow helpers slice across genes instead of cells for improved efficiency * Fixed minor bug * Solved issue with error propagation in `mclapply()` * Dropped use of `mclapply` for `getDataMatrix()` Including dropping unnecessary new parameters in functions calling it * Fixed test --------- Co-authored-by: Silvia Giulia Galfre <49807846+seriph78@users.noreply.github.com>
Package: COTAN
Commit: f382ed814dc01c46fd881496bee3f7ddc37db36d
Author: Marco Fantozzi <57561972+trinetra75@users.noreply.github.com>
Date: 2025-07-15 17:48:58 +0200
Commit message:
Commit: f382ed814dc01c46fd881496bee3f7ddc37db36d
Author: Marco Fantozzi <57561972+trinetra75@users.noreply.github.com>
Date: 2025-07-15 17:48:58 +0200
Commit message:
Bugfix/avoid split clust early termination (#121) * Avoided split clustering early termination Now maximum resolution is initial resolution plus 30 times the step Moreover the step can be incrased if upper bound reached and no new clusters are found Added dump of found clusterization as .cvs file * Added dump of final clusterization also in merge function Added some tests about these new files * Upadted the NEWS.md * Improved examples about plots
Package: Rsubread
Commit: 9c9f0896fe53cee92dfc8547928219edeb26abb0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 06:15:26 +0000
Commit message:
Commit: 9c9f0896fe53cee92dfc8547928219edeb26abb0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 06:15:26 +0000
Commit message:
Added functions for better junction reporting.
Package: TaxSEA
Commit: 4064b0328c85c6c5af8f0da0e967e0737cfc4f3b
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:30:20 +0930
Commit message:
Commit: 4064b0328c85c6c5af8f0da0e967e0737cfc4f3b
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:30:20 +0930
Commit message:
Bump version to trigger Bioconductor build
Package: TaxSEA
Commit: 9eead0226386956b7c4459d2f252e5331958ba79
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:29:50 +0930
Commit message:
Commit: 9eead0226386956b7c4459d2f252e5331958ba79
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:29:50 +0930
Commit message:
Bump version to trigger Bioconductor build
Package: TaxSEA
Commit: f6f309241be99beeacfcd9627830e75c03602014
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:25:17 +0930
Commit message:
Commit: f6f309241be99beeacfcd9627830e75c03602014
Author: Feargal Ryan <feargalr@gmail.com>
Date: 2025-07-17 14:25:17 +0930
Commit message:
Reformatted the output data frames
Package: Rsubread
Commit: d122509b7fa49642400905b336b33c0c2b3c851c
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 02:52:37 +0000
Commit message:
Commit: d122509b7fa49642400905b336b33c0c2b3c851c
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 02:52:37 +0000
Commit message:
it seems working.
Package: Rsubread
Commit: f52647c93410c14598ad486c30c4c2dfecd69a56
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 02:06:19 +0000
Commit message:
Commit: f52647c93410c14598ad486c30c4c2dfecd69a56
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-17 02:06:19 +0000
Commit message:
Very early functional version.
Package: scRNAseqApp
Commit: 06963551ed899c3b3ac8567d1b08d9863f943702
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-16 19:03:43 -0400
Commit message:
Commit: 06963551ed899c3b3ac8567d1b08d9863f943702
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-16 19:03:43 -0400
Commit message:
add the real code for two filters.
Package: scRNAseqApp
Commit: c100d584bb1944e6056f2afa3f0a0d8ae9c82c24
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-16 17:35:37 -0400
Commit message:
Commit: c100d584bb1944e6056f2afa3f0a0d8ae9c82c24
Author: Jianhong Ou <jianhong.ou@gmail.com>
Date: 2025-07-16 17:35:37 -0400
Commit message:
Filter cells by a range of value.
Package: bedbaser
Commit: 7a7e8055777f3d73f2847126de368721da6f6c38
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 11:48:23 -0400
Commit message:
Commit: 7a7e8055777f3d73f2847126de368721da6f6c38
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 11:48:23 -0400
Commit message:
Bump to 1.1.2
Package: bedbaser
Commit: 9fe0fcf6257d6f1054357ca7ff34c72c66674990
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 11:47:50 -0400
Commit message:
Commit: 9fe0fcf6257d6f1054357ca7ff34c72c66674990
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 11:47:50 -0400
Commit message:
Remove bigbed from vignettes
Package: bedbaser
Commit: 8500979e64a4c0a415064f39454c33e25c1c3c84
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 10:21:27 -0400
Commit message:
Commit: 8500979e64a4c0a415064f39454c33e25c1c3c84
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-16 10:21:27 -0400
Commit message:
Use release branch
Package: bedbaser
Commit: d8e58c8c99becf59e16a4194e724d666ced3cc94
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 10:26:38 -0400
Commit message:
Commit: d8e58c8c99becf59e16a4194e724d666ced3cc94
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 10:26:38 -0400
Commit message:
Remove devel in action
Package: bedbaser
Commit: f4873037812048fa0fb38c9d9336bde1946f32ef
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 10:10:16 -0400
Commit message:
Commit: f4873037812048fa0fb38c9d9336bde1946f32ef
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 10:10:16 -0400
Commit message:
Fix R versions in action
Package: bedbaser
Commit: 1015394f186eb4e7b664fac2e8ea48eb1267cacf
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:59:32 -0400
Commit message:
Commit: 1015394f186eb4e7b664fac2e8ea48eb1267cacf
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:59:32 -0400
Commit message:
Fix action
Package: bedbaser
Commit: 88bf3d8c111382591791587dd05eb2f9278d692e
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:51:31 -0400
Commit message:
Commit: 88bf3d8c111382591791587dd05eb2f9278d692e
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:51:31 -0400
Commit message:
Add release to action
Package: BiocFileCache
Commit: 0f8c62bf901f940a155829588d94828f3b11041f
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:51:49 -0400
Commit message:
Commit: 0f8c62bf901f940a155829588d94828f3b11041f
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:51:49 -0400
Commit message:
Merge pull request #65 from Bioconductor/bfc-from-df add makeBiocFileCacheFromDataFrame example
Package: BiocFileCache
Commit: 9cfbd1d0e295775ffdfc123d28470587a018188f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 20:21:42 -0400
Commit message:
Commit: 9cfbd1d0e295775ffdfc123d28470587a018188f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 20:21:42 -0400
Commit message:
add makeBiocFileCacheFromDataFrame example
Package: ExperimentHub
Commit: f2a82b504abea3cf7eb9806afc5c12229a5c3e70
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:51:02 -0400
Commit message:
Commit: f2a82b504abea3cf7eb9806afc5c12229a5c3e70
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:51:02 -0400
Commit message:
Merge pull request #50 from Bioconductor/pkgdown_prep resolve BiocCheck errors for pkgdown build
Package: ExperimentHub
Commit: 775f62a471e55c24e597a1df0ad575221fbff6f5
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 19:56:25 -0400
Commit message:
Commit: 775f62a471e55c24e597a1df0ad575221fbff6f5
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 19:56:25 -0400
Commit message:
load namespace and attach to search list
Package: ExperimentHub
Commit: a616df89683e3112ce41c09cf2178687de799c51
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:24:25 -0400
Commit message:
Commit: a616df89683e3112ce41c09cf2178687de799c51
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:24:25 -0400
Commit message:
move png to man/figures
Package: ExperimentHub
Commit: bda9031660f984b80b6830eb15e41c614a89226f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:24:10 -0400
Commit message:
Commit: bda9031660f984b80b6830eb15e41c614a89226f
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:24:10 -0400
Commit message:
run runnable examples
Package: ExperimentHub
Commit: 95348da04ab1a536e9dc05647477ecffbe04eb19
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:23:59 -0400
Commit message:
Commit: 95348da04ab1a536e9dc05647477ecffbe04eb19
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:23:59 -0400
Commit message:
use requireNamespace instead of require
Package: ExperimentHub
Commit: fdec9f8b5dbe5e69ca4f2519973aa642cb77d1a9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:23:31 -0400
Commit message:
Commit: fdec9f8b5dbe5e69ca4f2519973aa642cb77d1a9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 17:23:31 -0400
Commit message:
add URL to DESC
Package: AnnotationHub
Commit: fa85eadf3f0d059fdebb4d64f7043ed9ab50d537
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:48:47 -0400
Commit message:
Commit: fa85eadf3f0d059fdebb4d64f7043ed9ab50d537
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-16 12:48:47 -0400
Commit message:
Merge pull request #62 from Bioconductor/bioccheck_updates make more examples runnable in docs
Package: AnnotationHub
Commit: ad2ed509d2a4651c83ba1c87e8fb33022a732297
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 19:37:51 -0400
Commit message:
Commit: ad2ed509d2a4651c83ba1c87e8fb33022a732297
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 19:37:51 -0400
Commit message:
expand example in convertHub doc
Package: AnnotationHub
Commit: 45bdd118b992004612e8bb7f6230726811335446
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 18:04:11 -0400
Commit message:
Commit: 45bdd118b992004612e8bb7f6230726811335446
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-05-15 18:04:11 -0400
Commit message:
make more examples runnable in docs
Package: HiCExperiment
Commit: 447206133cc53d82a66df0726ef93deef3718ba7
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 15:58:33 +0200
Commit message:
Commit: 447206133cc53d82a66df0726ef93deef3718ba7
Author: js2264 <jacquesserizay@gmail.com>
Date: 2025-07-16 15:58:33 +0200
Commit message:
fix: #7
Package: MetaGxPancreas
Commit: d8803460124bc523aa82837e5cba299c16efc2b2
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-16 10:08:10 -0400
Commit message:
Commit: d8803460124bc523aa82837e5cba299c16efc2b2
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-16 10:08:10 -0400
Commit message:
Merge remote-tracking branch 'origin/master' into devel
Package: MetaGxPancreas
Commit: b11ccac7d5880c637c747093a660620c5abe09a4
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:08:32 -0400
Commit message:
Commit: b11ccac7d5880c637c747093a660620c5abe09a4
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:08:32 -0400
Commit message:
Update: Add current maintainer
Package: MetaGxPancreas
Commit: cd17880e013fda85290f05a74a5a7cf590f74479
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:05:59 -0400
Commit message:
Commit: cd17880e013fda85290f05a74a5a7cf590f74479
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:05:59 -0400
Commit message:
Style: linted
Package: MetaGxPancreas
Commit: 7f3dd5fa14d81e71ec9c3779ba62a0d0b07160a8
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:04:52 -0400
Commit message:
Commit: 7f3dd5fa14d81e71ec9c3779ba62a0d0b07160a8
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:04:52 -0400
Commit message:
Fix: Updated outdated dataset accessor
Package: MetaGxPancreas
Commit: 9135ff51fe1f4b1105c8447bb4a965ba1743c0e8
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:02:00 -0400
Commit message:
Commit: 9135ff51fe1f4b1105c8447bb4a965ba1743c0e8
Author: Michael Tran <mtran256@uwo.ca>
Date: 2025-07-07 13:02:00 -0400
Commit message:
fix: Updated VignetteEngine for formatting
Package: OmnipathR
Commit: a7f3b9ddaf748a240330f657309a941119801ecb
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-16 16:03:35 +0200
Commit message:
Commit: a7f3b9ddaf748a240330f657309a941119801ecb
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-16 16:03:35 +0200
Commit message:
Bump version: 3.17.3 → 3.17.4
Package: OmnipathR
Commit: 819beb56074e67de1b0a43e25186ef07bc44476b
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-16 16:03:29 +0200
Commit message:
Commit: 819beb56074e67de1b0a43e25186ef07bc44476b
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-16 16:03:29 +0200
Commit message:
`taxonomy`: fixed bugs introduced yesterday related to returning NCBI tax ids character instead of integer
Package: MetaScope
Commit: e49f530882b9c1894f4bd2c7c38622a97c177e0a
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-16 09:57:26 -0400
Commit message:
Commit: e49f530882b9c1894f4bd2c7c38622a97c177e0a
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-16 09:57:26 -0400
Commit message:
Update version number
Package: MetaScope
Commit: 8ba3c706c915b5e7197b58b84b357f8bb0ceb765
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-03 14:59:46 -0400
Commit message:
Commit: 8ba3c706c915b5e7197b58b84b357f8bb0ceb765
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-03 14:59:46 -0400
Commit message:
Replace mapply in metascope_id
Package: MetaScope
Commit: 1ce6756258aff1ed100e75d532b75193da95eb06
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-02 13:41:04 -0400
Commit message:
Commit: 1ce6756258aff1ed100e75d532b75193da95eb06
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-02 13:41:04 -0400
Commit message:
Fix documentation typo
Package: MetaScope
Commit: 0ac1f0c41ee2b7af0e17fe6d779e54edfe8da9af
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-02 10:13:55 -0700
Commit message:
Commit: 0ac1f0c41ee2b7af0e17fe6d779e54edfe8da9af
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-07-02 10:13:55 -0700
Commit message:
Merge pull request #45 from seanlu96/master updated with checks
Package: MetaScope
Commit: c6f9c1f470bcda0f8edede97500170f6fbba5cbf
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-07-02 12:47:34 -0400
Commit message:
Commit: c6f9c1f470bcda0f8edede97500170f6fbba5cbf
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-07-02 12:47:34 -0400
Commit message:
updated with checks
Package: MetaScope
Commit: 17b0a4bcad51885f9adb4aefbb74dc91167ccc57
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-06-11 16:16:04 -0400
Commit message:
Commit: 17b0a4bcad51885f9adb4aefbb74dc91167ccc57
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-06-11 16:16:04 -0400
Commit message:
Update to fix build warnings
Package: MetaScope
Commit: e7826c73e82e295510b82b3e1d0addea7c8e4580
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-06-11 12:21:34 -0400
Commit message:
Commit: e7826c73e82e295510b82b3e1d0addea7c8e4580
Author: Aubrey Odom <aodom@bu.edu>
Date: 2025-06-11 12:21:34 -0400
Commit message:
Merge pull request #44 from seanlu96/master Merge with wejlab MeteaScope
Package: MetaScope
Commit: d2611c1dfde78221eb6a32e0d1b29542f5ac3145
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-06-09 14:49:11 -0400
Commit message:
Commit: d2611c1dfde78221eb6a32e0d1b29542f5ac3145
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-06-09 14:49:11 -0400
Commit message:
merged with devel
Package: MetaScope
Commit: eccce6c4e7ae215fd2339cfc466bdac663f36171
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-05-21 23:23:28 -0400
Commit message:
Commit: eccce6c4e7ae215fd2339cfc466bdac663f36171
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-05-21 23:23:28 -0400
Commit message:
Update metascope_blast.R
Package: MetaScope
Commit: f60c676828141894922bfa072bf80bacca54c7a2
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-05-21 22:47:38 -0400
Commit message:
Commit: f60c676828141894922bfa072bf80bacca54c7a2
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-05-21 22:47:38 -0400
Commit message:
improved metascope_blast
Package: MetaScope
Commit: d8cde562d8d9039930c72e220b4a68ad49b9163b
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-05-04 21:19:37 -0400
Commit message:
Commit: d8cde562d8d9039930c72e220b4a68ad49b9163b
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-05-04 21:19:37 -0400
Commit message:
fixed update_bam with group_by species
Package: MetaScope
Commit: f156c8941814979d97d4c0e68e8f07beb2fe4abc
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-11 10:08:11 -0400
Commit message:
Commit: f156c8941814979d97d4c0e68e8f07beb2fe4abc
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-11 10:08:11 -0400
Commit message:
priors for read assignment
Package: MetaScope
Commit: 9c27ded0d04f52bed8c9168ba8482c4a5ff739bf
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-07 16:29:50 -0400
Commit message:
Commit: 9c27ded0d04f52bed8c9168ba8482c4a5ff739bf
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-07 16:29:50 -0400
Commit message:
Fixed missing taxonomy issues
Package: MetaScope
Commit: afb1e4a0eaae9f7a6c6014111d1f3f27437fd60c
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-04-07 09:01:00 -0400
Commit message:
Commit: afb1e4a0eaae9f7a6c6014111d1f3f27437fd60c
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-04-07 09:01:00 -0400
Commit message:
Update metascope_id.R
Package: MetaScope
Commit: 8531622331919d009e0d3149025b4679f767a300
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-01 15:29:08 -0400
Commit message:
Commit: 8531622331919d009e0d3149025b4679f767a300
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-04-01 15:29:08 -0400
Commit message:
Group by taxa (species)
Package: MetaScope
Commit: ff60e0736128847dea64222524ff7935cd977163
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-02-24 10:43:25 -0500
Commit message:
Commit: ff60e0736128847dea64222524ff7935cd977163
Author: Sean Lu <seanlu96@gmail.com>
Date: 2025-02-24 10:43:25 -0500
Commit message:
group metascope_id by species
Package: MetaScope
Commit: ea05a5cd139cb171cf0ae1ee9e463b6f2a918713
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-27 13:03:46 -0500
Commit message:
Commit: ea05a5cd139cb171cf0ae1ee9e463b6f2a918713
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-27 13:03:46 -0500
Commit message:
Update metascope_blast.R
Package: MetaScope
Commit: 25b53c66e7d3c1ca709c7f577f77cdf878562fc9
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-27 13:03:46 -0500
Commit message:
Commit: 25b53c66e7d3c1ca709c7f577f77cdf878562fc9
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-27 13:03:46 -0500
Commit message:
Update metascope_blast.R
Package: MetaScope
Commit: e216a3892ce94dc1ad8bc9c7c41ddcd24de3be73
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-24 15:25:33 -0500
Commit message:
Commit: e216a3892ce94dc1ad8bc9c7c41ddcd24de3be73
Author: Sean <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-24 15:25:33 -0500
Commit message:
Update DESCRIPTION Changed R version dependency
Package: MetaScope
Commit: d732a3967d2c9be555080183e86e876cf01fe018
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-23 10:21:23 -0500
Commit message:
Commit: d732a3967d2c9be555080183e86e876cf01fe018
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-23 10:21:23 -0500
Commit message:
fixed blast reassignment
Package: MetaScope
Commit: 3b0232da376cce7d58711222458dedb883fdebfb
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-23 10:17:02 -0500
Commit message:
Commit: 3b0232da376cce7d58711222458dedb883fdebfb
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-23 10:17:02 -0500
Commit message:
Merge branch 'master' of https://github.com/seanlu96/MetaScope # Conflicts: # R/download_accessions.R # inst/WORDLIST # man/download_accessions.Rd
Package: MetaScope
Commit: cf592d1a2e590460979db0a5210c0357e484f0de
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-16 10:52:31 -0500
Commit message:
Commit: cf592d1a2e590460979db0a5210c0357e484f0de
Author: seanlu96 <89270441+seanlu96@users.noreply.github.com>
Date: 2025-01-16 10:52:31 -0500
Commit message:
Merge branch 'master' of https://github.com/seanlu96/MetaScope # Conflicts: # R/download_accessions.R # man/download_accessions.Rd
Package: HiCDOC
Commit: 4e68c91d9efc0472ace0842a8b889fb801cba41c
Author: Elise Maigné <elise.maigne@inrae.fr>
Date: 2025-07-16 15:21:16 +0200
Commit message:
Commit: 4e68c91d9efc0472ace0842a8b889fb801cba41c
Author: Elise Maigné <elise.maigne@inrae.fr>
Date: 2025-07-16 15:21:16 +0200
Commit message:
fixing tests for new ggplot2 release
Package: SpectriPy
Commit: 99baf1c7f44d505012f61d2115107145beb725b9
Author: jorainer <johannes.rainer@gmail.com>
Date: 2025-07-16 13:09:00 +0200
Commit message:
Commit: 99baf1c7f44d505012f61d2115107145beb725b9
Author: jorainer <johannes.rainer@gmail.com>
Date: 2025-07-16 13:09:00 +0200
Commit message:
Print environment variables on failure
Package: cn.farms
Commit: ea7f6a4728c93ab41f1d272f6895d23e262e5227
Author: mitterec <a.mitterecker@gmail.com>
Date: 2025-07-16 12:54:34 +0200
Commit message:
Commit: ea7f6a4728c93ab41f1d272f6895d23e262e5227
Author: mitterec <a.mitterecker@gmail.com>
Date: 2025-07-16 12:54:34 +0200
Commit message:
Edit suggests
Package: StatescopeR
Commit: db323f658b644096a64d2cf9014067d7b528d5fb
Author: MSteketee <m.f.b.steketee@amsterdamumc.nl>
Date: 2025-07-16 12:31:25 +0200
Commit message:
Commit: db323f658b644096a64d2cf9014067d7b528d5fb
Author: MSteketee <m.f.b.steketee@amsterdamumc.nl>
Date: 2025-07-16 12:31:25 +0200
Commit message:
title update + version bump
Package: SpectriPy
Commit: ff51dbf053ef26b70eb10c7439b53a718c0b23f7
Author: jorainer <johannes.rainer@gmail.com>
Date: 2025-07-16 10:58:31 +0200
Commit message:
Commit: ff51dbf053ef26b70eb10c7439b53a718c0b23f7
Author: jorainer <johannes.rainer@gmail.com>
Date: 2025-07-16 10:58:31 +0200
Commit message:
Change required Python version to 3.12
Package: Rsubread
Commit: de829b00904b160e5674eb29dfdd6c52aa0e1827
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 06:06:36 +0000
Commit message:
Commit: de829b00904b160e5674eb29dfdd6c52aa0e1827
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 06:06:36 +0000
Commit message:
Done CIGAR building but a little wrong.
Package: Rsubread
Commit: ead2a658b12a517ca95325df932b1cd7c5eaa95c
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 04:13:32 +0000
Commit message:
Commit: ead2a658b12a517ca95325df932b1cd7c5eaa95c
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 04:13:32 +0000
Commit message:
More development for junction in cellCounts
Package: RITAN
Commit: 0affcc6d6116cf348166ac9c80457a22c1532da0
Author: mtzimmermann@mcw.edu <mtzimmermann@mcw.edu>
Date: 2025-07-15 22:45:24 -0500
Commit message:
Commit: 0affcc6d6116cf348166ac9c80457a22c1532da0
Author: mtzimmermann@mcw.edu <mtzimmermann@mcw.edu>
Date: 2025-07-15 22:45:24 -0500
Commit message:
remove linkcomm
Package: Rsubread
Commit: bddac84f2407e3bccc21bd8d7db4043f342e86c0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 02:51:40 +0000
Commit message:
Commit: bddac84f2407e3bccc21bd8d7db4043f342e86c0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 02:51:40 +0000
Commit message:
Done realignment core function.
Package: Aerith
Commit: 6a4e100b43db3069ebdff18b08f26de3ef3013cc
Author: xyz1396 <1074082710@qq.com>
Date: 2025-07-15 21:48:55 -0500
Commit message:
Commit: 6a4e100b43db3069ebdff18b08f26de3ef3013cc
Author: xyz1396 <1074082710@qq.com>
Date: 2025-07-15 21:48:55 -0500
Commit message:
bump version
Package: Aerith
Commit: 5557d833542631065cbc6d1386e2a6e16a616c16
Author: xyz1396 <1074082710@qq.com>
Date: 2025-07-15 21:39:12 -0500
Commit message:
Commit: 5557d833542631065cbc6d1386e2a6e16a616c16
Author: xyz1396 <1074082710@qq.com>
Date: 2025-07-15 21:39:12 -0500
Commit message:
fix cran warnings
Package: Rsubread
Commit: 905577a56c7d67a05448b0e51d95b14bbcbff35e
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 00:35:52 +0000
Commit message:
Commit: 905577a56c7d67a05448b0e51d95b14bbcbff35e
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-16 00:35:52 +0000
Commit message:
further development of the same
Package: biovizBase
Commit: a0e3965cc2b1eba953de8903786190249a4d4d0b
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:19 -0700
Commit message:
Commit: a0e3965cc2b1eba953de8903786190249a4d4d0b
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:19 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: microRNA
Commit: 40a8b3027306837a79a3d635581cc2932d4a0abb
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:14 -0700
Commit message:
Commit: 40a8b3027306837a79a3d635581cc2932d4a0abb
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:14 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: VariantTools
Commit: 1b0edab98b45e75ef6d035a80b829056d0de9097
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:03 -0700
Commit message:
Commit: 1b0edab98b45e75ef6d035a80b829056d0de9097
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:49:03 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: HelloRangesData
Commit: 3f964fbc7e658f544f6cf6ead2b1f35e1d2c0742
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:57 -0700
Commit message:
Commit: 3f964fbc7e658f544f6cf6ead2b1f35e1d2c0742
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:57 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: gmapR
Commit: 91d9ceaf71a645d32bb6f8e8b175d3771299b2d5
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:23 -0700
Commit message:
Commit: 91d9ceaf71a645d32bb6f8e8b175d3771299b2d5
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:23 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: HelloRanges
Commit: ed18be3684fc2a42f7ae69a0bd013e42870e9b98
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:13 -0700
Commit message:
Commit: ed18be3684fc2a42f7ae69a0bd013e42870e9b98
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:13 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: explorase
Commit: c38426f4bac0455cf765ecfc15afabcd56fae1c9
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:08 -0700
Commit message:
Commit: c38426f4bac0455cf765ecfc15afabcd56fae1c9
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:08 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: ggbio
Commit: 220ff44b0683479f9fc7a6dc78283e9d1dffacf7
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:03 -0700
Commit message:
Commit: 220ff44b0683479f9fc7a6dc78283e9d1dffacf7
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 16:48:03 -0700
Commit message:
Update maintainer e-mail to lawremi@gmail.com
Package: Rsubread
Commit: ace611562c11f6b496c7eb192cbd477d06228dc9
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 23:43:15 +0000
Commit message:
Commit: ace611562c11f6b496c7eb192cbd477d06228dc9
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 23:43:15 +0000
Commit message:
further development on a cloud compyuter
Package: Rsubread
Commit: eb2be3a29e2f2b8a028435ad541320aa8a424b89
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 23:16:18 +0000
Commit message:
Commit: eb2be3a29e2f2b8a028435ad541320aa8a424b89
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 23:16:18 +0000
Commit message:
further development for junc cellCounts
Package: Rsubread
Commit: ccf03099a2505a4c738ae419a2ef466705379bf0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 20:07:20 +0000
Commit message:
Commit: ccf03099a2505a4c738ae419a2ef466705379bf0
Author: Ubuntu <ubuntu@del4-linux.novalocal>
Date: 2025-07-15 20:07:20 +0000
Commit message:
Further development for junc
Package: cfTools
Commit: 970eb2dd4dfefed5d98b2c6c67cfd1fa840c9e76
Author: RoseHuRan <huran@ucla.edu>
Date: 2025-07-15 12:25:12 -0700
Commit message:
Commit: 970eb2dd4dfefed5d98b2c6c67cfd1fa840c9e76
Author: RoseHuRan <huran@ucla.edu>
Date: 2025-07-15 12:25:12 -0700
Commit message:
format
Package: cfTools
Commit: 953e9b5fd2e05bb91d187cfce8029eaeaa86afe2
Author: Ran Hu <huran@ucla.edu>
Date: 2025-07-15 11:56:10 -0700
Commit message:
Commit: 953e9b5fd2e05bb91d187cfce8029eaeaa86afe2
Author: Ran Hu <huran@ucla.edu>
Date: 2025-07-15 11:56:10 -0700
Commit message:
Merge pull request #10 from wisdomadingo/patch-1 Update cfTools-vignette.Rmd
Package: cfTools
Commit: a9047ec9d9cf4465db4084d99e635d40aa73cfb0
Author: wisdomadingo <51389108+wisdomadingo@users.noreply.github.com>
Date: 2025-07-15 11:49:23 -0400
Commit message:
Commit: a9047ec9d9cf4465db4084d99e635d40aa73cfb0
Author: wisdomadingo <51389108+wisdomadingo@users.noreply.github.com>
Date: 2025-07-15 11:49:23 -0400
Commit message:
Update cfTools-vignette.Rmd Added specific guides on pre-processing the input bed file and methylation info files. Newbies will find it very useful.
Package: gDRcore
Commit: dd1970e3c8f6a7c4d3baa284c100621fb6dcdb45
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 20:43:04 +0200
Commit message:
Commit: dd1970e3c8f6a7c4d3baa284c100621fb6dcdb45
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 20:43:04 +0200
Commit message:
Merge pull request #180 from gdrplatform/GDR-2187
Package: gDRcore
Commit: bbb0a85acf72908e311b1184c709bc859d4d69ff
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 12:47:43 +0200
Commit message:
Commit: bbb0a85acf72908e311b1184c709bc859d4d69ff
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 12:47:43 +0200
Commit message:
refactor: update missing variables
Package: gDRcore
Commit: be17a7736fe1b0b20102d1bb71b53bab837b9237
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:51:18 +0200
Commit message:
Commit: be17a7736fe1b0b20102d1bb71b53bab837b9237
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:51:18 +0200
Commit message:
fix: typo
Package: gDRcore
Commit: 8b3a75d6f8ac98d68d1314eb7bcd997b61b10c02
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:50:55 +0200
Commit message:
Commit: 8b3a75d6f8ac98d68d1314eb7bcd997b61b10c02
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:50:55 +0200
Commit message:
test: add unit tests
Package: gDRcore
Commit: 40182911c3d5b923d0a1b779564743c59b90a6be
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:47:50 +0200
Commit message:
Commit: 40182911c3d5b923d0a1b779564743c59b90a6be
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:47:50 +0200
Commit message:
chore: bump version and update NEWS.md
Package: gDRcore
Commit: cb9a736773663ab7c8df011849abef10ef78f800
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:46:43 +0200
Commit message:
Commit: cb9a736773663ab7c8df011849abef10ef78f800
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-15 11:46:43 +0200
Commit message:
refactor: swap drugs
Package: BiocPkgTools
Commit: 0a55068957d1655ee77801b691691f40c85cbdab
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:23:40 -0400
Commit message:
Commit: 0a55068957d1655ee77801b691691f40c85cbdab
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:23:40 -0400
Commit message:
version bump 1.27.9
Package: BiocPkgTools
Commit: 0adb6e0efd50d609b67e72bb4f82192d0a9a00f9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:22:09 -0400
Commit message:
Commit: 0adb6e0efd50d609b67e72bb4f82192d0a9a00f9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:22:09 -0400
Commit message:
update NEWS
Package: BiocPkgTools
Commit: 0218f71f62e3bb045efefc5b0724ef6efd4453bf
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:53 -0400
Commit message:
Commit: 0218f71f62e3bb045efefc5b0724ef6efd4453bf
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:53 -0400
Commit message:
use pkgndep to generate dependency_heatmap Co-authored-by: Giacomo Antonello <57659689+g-antonello@users.noreply.github.com>
Package: BiocPkgTools
Commit: 590d02ee3efca4ef1ec9714d81af8377e1a69ea3
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:35 -0400
Commit message:
Commit: 590d02ee3efca4ef1ec9714d81af8377e1a69ea3
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:35 -0400
Commit message:
update formatting of template
Package: BiocPkgTools
Commit: 2d334a5b417cc398822b591b81956625b8195cc6
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:01 -0400
Commit message:
Commit: 2d334a5b417cc398822b591b81956625b8195cc6
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:20:01 -0400
Commit message:
update title
Package: BiocPkgTools
Commit: e3b2a2cce180d1906c6c6edabed9e957ed7802bc
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:19:56 -0400
Commit message:
Commit: e3b2a2cce180d1906c6c6edabed9e957ed7802bc
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-15 14:19:56 -0400
Commit message:
add caching
Package: rtracklayer
Commit: 45261ddebff5de587b037a7273f5ce1f798920a2
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 10:25:16 -0700
Commit message:
Commit: 45261ddebff5de587b037a7273f5ce1f798920a2
Author: Michael Lawrence <lawremi@gmail.com>
Date: 2025-07-15 10:25:16 -0700
Commit message:
update email address
Package: OmnipathR
Commit: 4c13c6ba3090d61a04d646f7565d6c7dd92d0c52
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:48:12 +0200
Commit message:
Commit: 4c13c6ba3090d61a04d646f7565d6c7dd92d0c52
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:48:12 +0200
Commit message:
Bump version: 3.17.2 → 3.17.3
Package: OmnipathR
Commit: 1b9a6f0ce191e38bc8459dbe065707b77b6a2161
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:48:07 +0200
Commit message:
Commit: 1b9a6f0ce191e38bc8459dbe065707b77b6a2161
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:48:07 +0200
Commit message:
docs rebuild
Package: OmnipathR
Commit: 232f8cbce8a84ed2d31ac26d4229b60e8e1da7b6
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:47:59 +0200
Commit message:
Commit: 232f8cbce8a84ed2d31ac26d4229b60e8e1da7b6
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 17:47:59 +0200
Commit message:
`taxonomy` - also use UniProt taxonomy data
Package: OmnipathR
Commit: 224a3f01854b655a0268deaf1ddd8b781cc2a5e5
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 14:54:35 +0200
Commit message:
Commit: 224a3f01854b655a0268deaf1ddd8b781cc2a5e5
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 14:54:35 +0200
Commit message:
`uniprot_organisms`: access to UniProt taxonomy data
Package: raer
Commit: d0d952ea0bbf6d8d42c0a147d377dfd4f1932ca9
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-15 06:40:14 -0600
Commit message:
Commit: d0d952ea0bbf6d8d42c0a147d377dfd4f1932ca9
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-15 06:40:14 -0600
Commit message:
bump path to trigger build on bioc servers
Package: BayesSpace
Commit: 77335904f0f20b8390bbebe6264343d892a04104
Author: Senbai Kang <senbaikang@gmail.com>
Date: 2025-07-15 14:00:39 +0200
Commit message:
Commit: 77335904f0f20b8390bbebe6264343d892a04104
Author: Senbai Kang <senbaikang@gmail.com>
Date: 2025-07-15 14:00:39 +0200
Commit message:
version bump in devel
Package: BayesSpace
Commit: 26db61e03329ea30693808ee4e1f29811cd54d5c
Author: Senbai Kang <senbaikang@gmail.com>
Date: 2025-07-15 13:59:20 +0200
Commit message:
Commit: 26db61e03329ea30693808ee4e1f29811cd54d5c
Author: Senbai Kang <senbaikang@gmail.com>
Date: 2025-07-15 13:59:20 +0200
Commit message:
fix: url of example data
Package: BgeeCall
Commit: 4a70e0507e3d1f8ad5585a96da4bdb72e58c765e
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-15 11:22:55 +0200
Commit message:
Commit: 4a70e0507e3d1f8ad5585a96da4bdb72e58c765e
Author: Julien Wollbrett <julien.wollbrett@unil.ch>
Date: 2025-07-15 11:22:55 +0200
Commit message:
correct dependencies for Bioconductor tests on linux platform
Package: OmnipathR
Commit: 295e22f9e9f83fc34032c2799239be66ec7cf599
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 11:09:14 +0200
Commit message:
Commit: 295e22f9e9f83fc34032c2799239be66ec7cf599
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 11:09:14 +0200
Commit message:
Bump version: 3.17.1 → 3.17.2
Package: OmnipathR
Commit: 6a02374b7db1283bdf2a06cd7561d589c9897cfb
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 11:09:04 +0200
Commit message:
Commit: 6a02374b7db1283bdf2a06cd7561d589c9897cfb
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 11:09:04 +0200
Commit message:
organisms for `chalmers-gem`: added to supported names special rat common names from Ensembl
Package: OmnipathR
Commit: 7b8e4ab06c03b7eb1b81e484ef557d9fb894d322
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 10:47:13 +0200
Commit message:
Commit: 7b8e4ab06c03b7eb1b81e484ef557d9fb894d322
Author: deeenes <turei.denes@gmail.com>
Date: 2025-07-15 10:47:13 +0200
Commit message:
`oma_organisms` - updated column names
Package: gDRcore
Commit: b24e44e3d6e5fa38a9b000fe0d5c992f813d2ad1
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 11:04:36 +0200
Commit message:
Commit: b24e44e3d6e5fa38a9b000fe0d5c992f813d2ad1
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 11:04:36 +0200
Commit message:
Merge pull request #179 from gdrplatform/GDR-680 Gdr 680
Package: gDRcore
Commit: 36ccd9cee4037fa5d9883c3167e58f9d85d12f75
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 16:35:05 +0200
Commit message:
Commit: 36ccd9cee4037fa5d9883c3167e58f9d85d12f75
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 16:35:05 +0200
Commit message:
ci: trigger build
Package: gDRcore
Commit: 4a1aa813c38470017b43885170d1fadc09f97382
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-14 13:18:00 +0200
Commit message:
Commit: 4a1aa813c38470017b43885170d1fadc09f97382
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-14 13:18:00 +0200
Commit message:
Update R/fit_SE.R Co-authored-by: j-smola <31825957+j-smola@users.noreply.github.com>
Package: gDRcore
Commit: bf21eaf90f4a2c405693292a3f0b9bd06bca6aa8
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:41:36 +0200
Commit message:
Commit: bf21eaf90f4a2c405693292a3f0b9bd06bca6aa8
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:41:36 +0200
Commit message:
chore: bump version and update NEWS.md
Package: gDRcore
Commit: 65c627d7df51b78659a22345cfaec49a440b9978
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:40:40 +0200
Commit message:
Commit: 65c627d7df51b78659a22345cfaec49a440b9978
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:40:40 +0200
Commit message:
refactor: headers
Package: gDRutils
Commit: 185705c4529e45f7bcdfc2e9d9b53e8a291484bb
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 11:04:25 +0200
Commit message:
Commit: 185705c4529e45f7bcdfc2e9d9b53e8a291484bb
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-15 11:04:25 +0200
Commit message:
Merge pull request #168 from gdrplatform/GDR-680 Gdr 680
Package: gDRutils
Commit: b08767fe302989a505f9cc413212f443e59c1921
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 16:34:49 +0200
Commit message:
Commit: b08767fe302989a505f9cc413212f443e59c1921
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 16:34:49 +0200
Commit message:
refactor: update full list of headers
Package: gDRutils
Commit: 1dbb8b5d0222d3135326bb8e2078a556b6492be3
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-14 13:18:41 +0200
Commit message:
Commit: 1dbb8b5d0222d3135326bb8e2078a556b6492be3
Author: Bartek <32614650+bczech@users.noreply.github.com>
Date: 2025-07-14 13:18:41 +0200
Commit message:
Update R/headers_list.R Co-authored-by: j-smola <31825957+j-smola@users.noreply.github.com>
Package: gDRutils
Commit: 98a69a7615e4b4a89bdf70d63cd04bac1aa722cd
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:38:50 +0200
Commit message:
Commit: 98a69a7615e4b4a89bdf70d63cd04bac1aa722cd
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:38:50 +0200
Commit message:
chore: bump version and update NEWS.md
Package: gDRutils
Commit: f9235b6823c85396a4396a6791e4192e6d54344b
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:34:41 +0200
Commit message:
Commit: f9235b6823c85396a4396a6791e4192e6d54344b
Author: Bartek Czech <bartosz.w.czech@gmail.com>
Date: 2025-07-14 08:34:41 +0200
Commit message:
refactor: add missing headers
Package: EventPointer
Commit: 29b679f0a2adfec7b4a008159e1550b53d3aadd3
Author: JFerrer-B <jafhernandez@tecnun.es>
Date: 2025-07-15 10:19:42 +0200
Commit message:
Commit: 29b679f0a2adfec7b4a008159e1550b53d3aadd3
Author: JFerrer-B <jafhernandez@tecnun.es>
Date: 2025-07-15 10:19:42 +0200
Commit message:
fix citation bug
Package: adverSCarial
Commit: f22c09fe2d82991e5ca8d128bd3a020a45639369
Author: gui <ghislain.fievet@gmail.com>
Date: 2025-07-15 09:16:49 +0200
Commit message:
Commit: f22c09fe2d82991e5ca8d128bd3a020a45639369
Author: gui <ghislain.fievet@gmail.com>
Date: 2025-07-15 09:16:49 +0200
Commit message:
bump and citation
Package: ggmsa
Commit: 2ff6f3aa6695141ed3b8c7b1802e757df8e11414
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-15 15:05:54 +0800
Commit message:
Commit: 2ff6f3aa6695141ed3b8c7b1802e757df8e11414
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-15 15:05:54 +0800
Commit message:
correct branch
Package: ggmsa
Commit: 3c072fcf0b3605d47dbe6a1c887cba5bfb06b159
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 15:33:55 +0800
Commit message:
Commit: 3c072fcf0b3605d47dbe6a1c887cba5bfb06b159
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 15:33:55 +0800
Commit message:
correct aes mapping from fill to group
Package: ggmsa
Commit: 0d8b564af6a66991a8174b722b633327251e2dab
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 14:10:57 +0800
Commit message:
Commit: 0d8b564af6a66991a8174b722b633327251e2dab
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 14:10:57 +0800
Commit message:
correct devel version
Package: ggmsa
Commit: 6e005f8ba2f60799f03177d7d38fba826ed81f0a
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 14:09:04 +0800
Commit message:
Commit: 6e005f8ba2f60799f03177d7d38fba826ed81f0a
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 14:09:04 +0800
Commit message:
switch to devel branch
Package: ggmsa
Commit: d6e16443c28e68a13fd497f09b4cd23a3cbcf09a
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 12:10:25 +0800
Commit message:
Commit: d6e16443c28e68a13fd497f09b4cd23a3cbcf09a
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 12:10:25 +0800
Commit message:
add biocversion
Package: ggmsa
Commit: f914fc33593755e8b8403406e8320ed9d553cb81
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 12:05:08 +0800
Commit message:
Commit: f914fc33593755e8b8403406e8320ed9d553cb81
Author: Guangchuang Yu <guangchuangyu@gmail.com>
Date: 2025-07-12 12:05:08 +0800
Commit message:
using ggfun::geom_xspline
Package: Chromatograms
Commit: 07cfc7edddd7ef674a8ff6bea9a93cab7150db31
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-15 08:48:59 +0200
Commit message:
Commit: 07cfc7edddd7ef674a8ff6bea9a93cab7150db31
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-15 08:48:59 +0200
Commit message:
bump version to test build
Package: bedbaser
Commit: ba9d1c4eebd9712526857fe15c369cfb08c586d3
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:06:35 -0400
Commit message:
Commit: ba9d1c4eebd9712526857fe15c369cfb08c586d3
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 01:06:35 -0400
Commit message:
Bump version to 1.1.1
Package: bedbaser
Commit: d81bc77c1aedbec5df767efae2329fdb138ea3b5
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 00:59:27 -0400
Commit message:
Commit: d81bc77c1aedbec5df767efae2329fdb138ea3b5
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 00:59:27 -0400
Commit message:
Remove bigbed test
Package: bedbaser
Commit: 14fd3ec458ef67efdcd6196b5d5637637b822edf
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 00:41:32 -0400
Commit message:
Commit: 14fd3ec458ef67efdcd6196b5d5637637b822edf
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-07-15 00:41:32 -0400
Commit message:
Update to bedbase 0.10.6
Package: bedbaser
Commit: 21cafd0b8694b93463218d40453e1a15d616cc12
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-05-27 21:55:11 -0400
Commit message:
Commit: 21cafd0b8694b93463218d40453e1a15d616cc12
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-05-27 21:55:11 -0400
Commit message:
Update for 0.10.3 - Add support for gappedPeak, RNA elements bed files - Raise an error for unknown files - Replace mouse bed file in vignette - Replace bed_type with bed_compliance - Comment out bigBed until import fixed
Package: bedbaser
Commit: bd36167f37d7061ce297fc627ec415482ec8a640
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-05-27 12:50:19 -0400
Commit message:
Commit: bd36167f37d7061ce297fc627ec415482ec8a640
Author: Wokaty <awokaty@users.noreply.github.com>
Date: 2025-05-27 12:50:19 -0400
Commit message:
Update api to 0.10.3, add bb_stats
Package: bedbaser
Commit: c2df38bbb45a1cd3864f9467b07c115cba6f9118
Author: Wokaty <jwokaty@users.noreply.github.com>
Date: 2025-04-25 12:13:17 -0400
Commit message:
Commit: c2df38bbb45a1cd3864f9467b07c115cba6f9118
Author: Wokaty <jwokaty@users.noreply.github.com>
Date: 2025-04-25 12:13:17 -0400
Commit message:
Update api to 0.10.1
Package: sccomp
Commit: 5c14619cb6b6e125ad8a4f6304b56236e5b28e76
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 15:38:54 +0930
Commit message:
Commit: 5c14619cb6b6e125ad8a4f6304b56236e5b28e76
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 15:38:54 +0930
Commit message:
Merge pull request #217 from MangiolaLaboratory/simplify-code Simplify code
Package: sccomp
Commit: e9f64e6272e466d188e64b28929450b980394d41
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 14:58:36 +0930
Commit message:
Commit: e9f64e6272e466d188e64b28929450b980394d41
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 14:58:36 +0930
Commit message:
Update DESCRIPTION
Package: sccomp
Commit: f367f3be0ac7c3f9138547c12ac3e148de184fd9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 12:24:05 +0930
Commit message:
Commit: f367f3be0ac7c3f9138547c12ac3e148de184fd9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 12:24:05 +0930
Commit message:
Removed unused functions
Package: sccomp
Commit: 493b7ebbb6d2855fdee68f9a9458937ee0b7e43c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 09:21:45 +0930
Commit message:
Commit: 493b7ebbb6d2855fdee68f9a9458937ee0b7e43c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-14 09:21:45 +0930
Commit message:
Refactor data handling in multiple functions to replace deprecated as_matrix with column_to_rownames and pivot_wider for improved data manipulation. Enhance tests to validate handling of NA values in various scenarios.
Package: sccomp
Commit: 40c9d5a310f222d47403c7dcf78ea90f81696384
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 20:20:11 +0930
Commit message:
Commit: 40c9d5a310f222d47403c7dcf78ea90f81696384
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 20:20:11 +0930
Commit message:
Remove deprecated functions from tests
Package: sccomp
Commit: 15a22669cb713e09140a7de491a44bc41ae462b2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 20:00:05 +0930
Commit message:
Commit: 15a22669cb713e09140a7de491a44bc41ae462b2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 20:00:05 +0930
Commit message:
Refactor code for improved clarity and functionality. Removed deprecated functions and updated import statements. Enhanced data selection logic in `add_formula_columns` and improved conditional handling in `get_specific_annotation_columns`. Updated pivoting method in `as_matrix` for consistency.
Package: sccomp
Commit: 9ecb42e27069076c72c2d5ceb08f2a031bb94660
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 13:33:47 +0930
Commit message:
Commit: 9ecb42e27069076c72c2d5ceb08f2a031bb94660
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 13:33:47 +0930
Commit message:
Refactor cache directory handling and improve function definitions. Updated global variable initialization to use a dedicated function for cache directory retrieval. Enhanced comparison logic in validation functions for clarity and consistency.
Package: sccomp
Commit: efbf852ab4b613d0165da736acd619639e4cf561
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:27:31 +0930
Commit message:
Commit: efbf852ab4b613d0165da736acd619639e4cf561
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:27:31 +0930
Commit message:
Fix documentation warnings
Package: sccomp
Commit: ef038a93e300e422c30fcb5953ca52fd11c80e43
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:22:13 +0930
Commit message:
Commit: ef038a93e300e422c30fcb5953ca52fd11c80e43
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:22:13 +0930
Commit message:
Merge pull request #216 from MangiolaLaboratory/improve-2d-plot Improve 2d plot
Package: sccomp
Commit: c369dbe0909376e1257792c85f21fc025780f0cc
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:21:49 +0930
Commit message:
Commit: c369dbe0909376e1257792c85f21fc025780f0cc
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:21:49 +0930
Commit message:
Update DESCRIPTION
Package: sccomp
Commit: 5dd9caa461183e5d038e6198173e45ea4d2484d2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:19:22 +0930
Commit message:
Commit: 5dd9caa461183e5d038e6198173e45ea4d2484d2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 12:19:22 +0930
Commit message:
Update README and plot functions to improve visualization clarity and aesthetics. Adjusted color scales in plot_1D_intervals for significance thresholds and updated figures in the README to reflect recent analysis results. Enhanced traceplot aesthetics in the introduction vignette.
Package: sccomp
Commit: 443538f64eed83de724bf8e47a29d2ac4bc3a5e1
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 11:42:20 +0930
Commit message:
Commit: 443538f64eed83de724bf8e47a29d2ac4bc3a5e1
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 11:42:20 +0930
Commit message:
Update README and plot functions to enhance clarity and accuracy in visualizations. Adjusted parameter handling in plot_2D_intervals to exclude intercepts from significance coloring. Updated README figures to reflect recent changes in analysis results and improved plot aesthetics.
Package: sccomp
Commit: 7611932bc91c7252b216f37a59667dea28fe1d42
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 11:26:24 +0930
Commit message:
Commit: 7611932bc91c7252b216f37a59667dea28fe1d42
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 11:26:24 +0930
Commit message:
Update README and introduction vignette to include logo and video link. Removed outdated intro.Rmd file. Adjusted references to the package in badges and descriptions for clarity and consistency.
Package: sccomp
Commit: fd7b6c665020adc87db01e695ab0ddd79a9bec16
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 09:49:07 +0930
Commit message:
Commit: fd7b6c665020adc87db01e695ab0ddd79a9bec16
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-13 09:49:07 +0930
Commit message:
Replace 'corrected' terminology with 'adjusted' for intercept data. Updated data processing and plotting logic to reflect this change, including the addition of a horizontal line for the adjusted intercept facet. Ensured proper labeling and ordering of parameters in the plot.
Package: sccomp
Commit: 11ccb69834d0b573dd2c3b4013e2a3a949f00752
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:37:54 +0930
Commit message:
Commit: 11ccb69834d0b573dd2c3b4013e2a3a949f00752
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:37:54 +0930
Commit message:
Update R/plot.R Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: sccomp
Commit: 6bb0102162907dca224af226463aa2523620b467
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:37:22 +0930
Commit message:
Commit: 6bb0102162907dca224af226463aa2523620b467
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:37:22 +0930
Commit message:
Update tests/testthat/test-plot.R Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: sccomp
Commit: d3d297b517c475949a53d9e6757a747e1fec58fe
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:56:58 +0930
Commit message:
Commit: d3d297b517c475949a53d9e6757a747e1fec58fe
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:56:58 +0930
Commit message:
update README
Package: sccomp
Commit: 08f6a06e93040fca0e3f4722aae3e525df764b9f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:29:40 +0930
Commit message:
Commit: 08f6a06e93040fca0e3f4722aae3e525df764b9f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 21:29:40 +0930
Commit message:
Enhance plot_2D_intervals function by adding corrected intercept as a new facet. Updated data processing to include corrected variability effects and adjusted facet ordering. Modified plotting logic to accommodate new data structure and ensure proper labeling of cell types. Improved regression line aesthetics and ensured compatibility with updated parameter handling.
Package: sccomp
Commit: 05bf5b728c8cba3106bfd489f024f56b6c5795e2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 20:18:42 +0930
Commit message:
Commit: 05bf5b728c8cba3106bfd489f024f56b6c5795e2
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 20:18:42 +0930
Commit message:
Enhance plot_2D_intervals function to include regression line based on prec_coeff parameters. Added calculations for intercept and slope, and updated plotting logic to display the regression line. Added tests to verify the inclusion of the regression line in the generated plots.
Package: sccomp
Commit: ae4c9a67064c119253aaf176513d2a9dcd0bf163
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 23:22:07 +0930
Commit message:
Commit: ae4c9a67064c119253aaf176513d2a9dcd0bf163
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 23:22:07 +0930
Commit message:
Refactor DESCRIPTION and README for sccomp package - Updated package title and description to reflect comprehensive capabilities in differential composition and variability analysis for single-cell data. - Enhanced author list in DESCRIPTION to include additional contributors. - Revised README to provide a clearer overview of package functionalities, key applications, and installation instructions. - Added new visualizations and examples in the README to illustrate the package's features and usage. - Removed outdated README.Rmd file to streamline documentation.
Package: sccomp
Commit: f6374281c723eac8eef8e595c6e2ee796916975d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:48:56 +0930
Commit message:
Commit: f6374281c723eac8eef8e595c6e2ee796916975d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:48:56 +0930
Commit message:
Update NEWS.rd to reflect improvements in model efficiency and reliability with sum-to-zero variable constraints. Clarified the rationale for the change, user benefits, and summarized the enhancements in effective sample size (ESS) across various datasets.
Package: sccomp
Commit: f216d596b77fd9198678622d3a81db98aa349320
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:40:08 +0930
Commit message:
Commit: f216d596b77fd9198678622d3a81db98aa349320
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:40:08 +0930
Commit message:
Merge pull request #211 from MangiolaLaboratory/sum-to-zero-variable Sum to zero variable
Package: sccomp
Commit: e31bf60af15acf6490390b4c92321c496785639a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:39:35 +0930
Commit message:
Commit: e31bf60af15acf6490390b4c92321c496785639a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:39:35 +0930
Commit message:
Update NEWS.rd
Package: sccomp
Commit: 3e4f3dc4b12c0d093cc753068527ec5a0a194ccb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:05:04 +0930
Commit message:
Commit: 3e4f3dc4b12c0d093cc753068527ec5a0a194ccb
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 18:05:04 +0930
Commit message:
Update model_fitting.R
Package: sccomp
Commit: 54f7848ffcef03ca051e3724835d9c524f53bc56
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:52:50 +0930
Commit message:
Commit: 54f7848ffcef03ca051e3724835d9c524f53bc56
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:52:50 +0930
Commit message:
Update cmdstanr version check in model_fitting.R to require version 0.9.0 - Added version requirement for cmdstanr to ensure compatibility with new features. - Removed outdated version check logic to streamline the installation process.
Package: sccomp
Commit: 1436a7aeb12502311cf5422ba077b82205a6fa32
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 12:59:48 +0930
Commit message:
Commit: 1436a7aeb12502311cf5422ba077b82205a6fa32
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 12:59:48 +0930
Commit message:
Enhance NEWS.rd with details on version 2.1.11 improvements - Introduced a new sum-to-zero variable constraint method, enhancing model efficiency and reliability. - Explained the rationale behind the change, highlighting the previous method's limitations. - Clarified user benefits, including faster convergence and increased effective sample size (ESS). - Summarized the improvement in ESS across various datasets, demonstrating significant gains in analysis robustness and reproducibility.
Package: sccomp
Commit: ddad90d843874bd5576717bbc749f849ab2930f5
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 13:06:16 +1000
Commit message:
Commit: ddad90d843874bd5576717bbc749f849ab2930f5
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 13:06:16 +1000
Commit message:
update comparative test for efficiency
Package: sccomp
Commit: 77fb2d435afee52f40798376974aa8a5e9951fb7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 10:16:34 +0930
Commit message:
Commit: 77fb2d435afee52f40798376974aa8a5e9951fb7
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 10:16:34 +0930
Commit message:
Enhance compare_branches_job.R with renv integration and improved data handling - Added setup_renv and cleanup_renv functions for isolated environment management using renv. - Streamlined package installation within the run_branch function to utilize renv. - Introduced prepare_data function for data loading and preparation, ensuring clarity in data processing steps. - Launched comparison jobs in the main execution section, providing clear instructions for users. - Improved comments and structure throughout the script for better readability and usability.
Package: sccomp
Commit: 7e32873dbe60f6350068a4e4479bce11f4e86f4a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 09:28:55 +0930
Commit message:
Commit: 7e32873dbe60f6350068a4e4479bce11f4e86f4a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 09:28:55 +0930
Commit message:
Update workflow_with_cmdstanr.yml to temporarily install cmdstanr from GitHub v0.9.0 - Added conditional installation of the remotes package. - Switched to GitHub installation of cmdstanr for this branch, while commenting out the original CRAN installation method.
Package: sccomp
Commit: b9f6e158c004019c2ef736ca0f1955beb80a1751
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 07:53:31 +0930
Commit message:
Commit: b9f6e158c004019c2ef736ca0f1955beb80a1751
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 07:53:31 +0930
Commit message:
Update R/utilities.R Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
Package: sccomp
Commit: 18800d40cd950b603c643b839cf2eb404e7832b4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 23:43:37 +0930
Commit message:
Commit: 18800d40cd950b603c643b839cf2eb404e7832b4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 23:43:37 +0930
Commit message:
Add detailed comments and structure to compare_branches_job.R script - Included package installation checks and loading of required libraries. - Enhanced the run_branch function with comments on package management and model fitting. - Improved data preparation steps with clear explanations. - Added background job launches for both master and sum-to-zero-variable branches. - Included visualization enhancements for comparing Effective Sample Size (ESS) between branches.
Package: sccomp
Commit: 065e6e40419944c49490c247ecf4a4a4d91a9db4
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 10:49:02 +1000
Commit message:
Commit: 065e6e40419944c49490c247ecf4a4a4d91a9db4
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 10:49:02 +1000
Commit message:
pass fit
Package: sccomp
Commit: a0f7d8e0efe0c16c3b19a801ac9d5ee047267158
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 23:27:23 +0930
Commit message:
Commit: a0f7d8e0efe0c16c3b19a801ac9d5ee047267158
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 23:27:23 +0930
Commit message:
drop post-model correction calculations. Transition to using built-in sum_to_zero_vector in Stan for improved efficiency and clarity.
Package: sccomp
Commit: 799041dd7ebe1278b88249d4871f5a66f2344fc2
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 00:10:48 +1000
Commit message:
Commit: 799041dd7ebe1278b88249d4871f5a66f2344fc2
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 00:10:48 +1000
Commit message:
update branch comparison
Package: sccomp
Commit: 65208918207392d99267f4adc43e7ef6900b6739
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 00:00:02 +1000
Commit message:
Commit: 65208918207392d99267f4adc43e7ef6900b6739
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-10 00:00:02 +1000
Commit message:
update script to compare efficacy of sum-to-zero
Package: sccomp
Commit: d3a0b58370ddeff5869886573ed5b7c264063ba9
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 11:36:20 +1000
Commit message:
Commit: d3a0b58370ddeff5869886573ed5b7c264063ba9
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 11:36:20 +1000
Commit message:
drop try catch for fitting
Package: sccomp
Commit: f502c1fdd68e0a58e3679bfb0a913eadcd936aa6
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:10 +0930
Commit message:
Commit: f502c1fdd68e0a58e3679bfb0a913eadcd936aa6
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:10 +0930
Commit message:
Correct beta_raw matrix dimensions and improve error handling during HMC inference. Adjusted verbosity for exception display and refined error reporting for model compilation issues.
Package: sccomp
Commit: 940ff35296a9aee58bc034687df07764f2716790
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 14:32:07 +0930
Commit message:
Commit: 940ff35296a9aee58bc034687df07764f2716790
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 14:32:07 +0930
Commit message:
Refactor random effect handling in glm_multi_beta_binomial_generate_data.stan to use regular vectors instead of sum_to_zero_vector for improved floating-point precision. Adjusted array dimensions for random effects and their corresponding sigma parameters to ensure consistency across the model. Applied manual sum-to-zero constraints where necessary.
Package: sccomp
Commit: adf88ec607ccdba9313f79500479efa45cabe420
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 09:33:08 +0930
Commit message:
Commit: adf88ec607ccdba9313f79500479efa45cabe420
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 09:33:08 +0930
Commit message:
Fix random effect
Package: sccomp
Commit: 5f5ed989b2826625fcdb9475623070b193f8a47d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 22:36:14 +0930
Commit message:
Commit: 5f5ed989b2826625fcdb9475623070b193f8a47d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 22:36:14 +0930
Commit message:
Update random effect initialization in model fitting and Stan files to accommodate changes in dimensions. Adjusted matrix sizes for random effects and their corresponding sigma parameters to ensure consistency across the model. Enabled debugging output for better traceability during inference.
Package: sccomp
Commit: 700e9677764ec477070116d32df216cf0828bcc4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 10:03:59 +0930
Commit message:
Commit: 700e9677764ec477070116d32df216cf0828bcc4
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 10:03:59 +0930
Commit message:
Update priors and random effects in glm_multi_beta_binomial Stan model to use correct scaling for sum-to-zero constraints. Adjusted normal distributions for random effects and their corresponding sigma parameters to enhance model accuracy and consistency.
Package: sccomp
Commit: ac4bf4e97af39b7672f9252972099081530b83e0
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 09:51:08 +0930
Commit message:
Commit: ac4bf4e97af39b7672f9252972099081530b83e0
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 09:51:08 +0930
Commit message:
Refactor random effect handling in Stan models to use arrays instead of matrices for improved flexibility. Updated related functions to accommodate changes in dimensions and ensure proper sum-to-zero constraints for random effects. Adjusted model calculations to reflect these updates, enhancing overall consistency across the codebase.
Package: sccomp
Commit: d151d9a6fdc257bd2276dcca27e2016be99b6532
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-06 18:30:04 +0930
Commit message:
Commit: d151d9a6fdc257bd2276dcca27e2016be99b6532
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-06 18:30:04 +0930
Commit message:
Update README and code to require cmdstanr version 0.9.0 or higher for new features; remove deprecated QR-based sum-to-zero functions and replace with new implementation. Add error handling for cmdstanr version checks. Include new figures in vignettes.
Package: sccomp
Commit: 00a04ff9a791dfaa0a2ba48e7774f51709ed863c
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 18:42:00 +1000
Commit message:
Commit: 00a04ff9a791dfaa0a2ba48e7774f51709ed863c
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 18:42:00 +1000
Commit message:
version UP
Package: sccomp
Commit: 3c24c63868dc0f9beaa3c3469914eef0eac8f499
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 11:36:20 +1000
Commit message:
Commit: 3c24c63868dc0f9beaa3c3469914eef0eac8f499
Author: stemangiola <mangiolastefano@gmail.com>
Date: 2025-07-09 11:36:20 +1000
Commit message:
drop try catch for fitting
Package: sccomp
Commit: a04db5563fc16ac8e977bf3d15a7c8723fce2b8f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 16:38:18 +0930
Commit message:
Commit: a04db5563fc16ac8e977bf3d15a7c8723fce2b8f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 16:38:18 +0930
Commit message:
Add compare_branches_job.R script for parallel branch comparison This new script allows users to launch background jobs for two branches, install the selected sccomp branch, and run a lightweight model fit on test data. It includes a function to compare results after job completion, enhancing workflow efficiency for model evaluation.
Package: sccomp
Commit: 2daf18597823cb5ec2e3b01bf141af1aa1fe528e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:33 +0930
Commit message:
Commit: 2daf18597823cb5ec2e3b01bf141af1aa1fe528e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:33 +0930
Commit message:
Rename directory
Package: sccomp
Commit: cb5c815ee9552946c0d2efd9efb2a7a01b350a6b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:10 +0930
Commit message:
Commit: cb5c815ee9552946c0d2efd9efb2a7a01b350a6b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 15:25:10 +0930
Commit message:
Correct beta_raw matrix dimensions and improve error handling during HMC inference. Adjusted verbosity for exception display and refined error reporting for model compilation issues.
Package: sccomp
Commit: f9c7f5b0f6a95ea07bfa9fa770f587b734384d66
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 14:32:07 +0930
Commit message:
Commit: f9c7f5b0f6a95ea07bfa9fa770f587b734384d66
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 14:32:07 +0930
Commit message:
Refactor random effect handling in glm_multi_beta_binomial_generate_data.stan to use regular vectors instead of sum_to_zero_vector for improved floating-point precision. Adjusted array dimensions for random effects and their corresponding sigma parameters to ensure consistency across the model. Applied manual sum-to-zero constraints where necessary.
Package: sccomp
Commit: d0d3bdba8ef9707100dcdcfb45e32b5f78da1ba5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 09:33:08 +0930
Commit message:
Commit: d0d3bdba8ef9707100dcdcfb45e32b5f78da1ba5
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-08 09:33:08 +0930
Commit message:
Fix random effect
Package: sccomp
Commit: caf99726e719af039f8518706f252381bef1de8b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 22:36:14 +0930
Commit message:
Commit: caf99726e719af039f8518706f252381bef1de8b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 22:36:14 +0930
Commit message:
Update random effect initialization in model fitting and Stan files to accommodate changes in dimensions. Adjusted matrix sizes for random effects and their corresponding sigma parameters to ensure consistency across the model. Enabled debugging output for better traceability during inference.
Package: sccomp
Commit: 7e56338fbf9430f210bb68028347b21b11ed1b3e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 10:03:59 +0930
Commit message:
Commit: 7e56338fbf9430f210bb68028347b21b11ed1b3e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 10:03:59 +0930
Commit message:
Update priors and random effects in glm_multi_beta_binomial Stan model to use correct scaling for sum-to-zero constraints. Adjusted normal distributions for random effects and their corresponding sigma parameters to enhance model accuracy and consistency.
Package: sccomp
Commit: 0a5dde8ea28f42224994f2114ac00e096e3c9cf3
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 09:51:08 +0930
Commit message:
Commit: 0a5dde8ea28f42224994f2114ac00e096e3c9cf3
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-07 09:51:08 +0930
Commit message:
Refactor random effect handling in Stan models to use arrays instead of matrices for improved flexibility. Updated related functions to accommodate changes in dimensions and ensure proper sum-to-zero constraints for random effects. Adjusted model calculations to reflect these updates, enhancing overall consistency across the codebase.
Package: sccomp
Commit: dfac88141123dc7db03724fe017141a6bfb9cf18
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-06 18:30:04 +0930
Commit message:
Commit: dfac88141123dc7db03724fe017141a6bfb9cf18
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-06 18:30:04 +0930
Commit message:
Update README and code to require cmdstanr version 0.9.0 or higher for new features; remove deprecated QR-based sum-to-zero functions and replace with new implementation. Add error handling for cmdstanr version checks. Include new figures in vignettes.
Package: sccomp
Commit: 123fdf71eaa04b91d5045853bdce3830c2a2e77d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:53:05 +0930
Commit message:
Commit: 123fdf71eaa04b91d5045853bdce3830c2a2e77d
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:53:05 +0930
Commit message:
Merge pull request #214 from MangiolaLaboratory/improve-cmdstanr-check Refactor error handling in check_and_install_cmdstanr function
Package: sccomp
Commit: 5ac4199ac5ba6429900a03b0cc7919531657d446
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:13:02 +0930
Commit message:
Commit: 5ac4199ac5ba6429900a03b0cc7919531657d446
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 17:13:02 +0930
Commit message:
Update repository URLs in check_and_install_cmdstanr function to include new Stan Dev repository
Package: sccomp
Commit: 60accfc33d13a81c23362a65415a0f5a0e5892c0
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:38:23 +0930
Commit message:
Commit: 60accfc33d13a81c23362a65415a0f5a0e5892c0
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:38:23 +0930
Commit message:
Merge branch 'master' into improve-cmdstanr-check
Package: sccomp
Commit: 4c1b7541c18ad60806481e8d5d5fb97cac80fd9a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:38:04 +0930
Commit message:
Commit: 4c1b7541c18ad60806481e8d5d5fb97cac80fd9a
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:38:04 +0930
Commit message:
Update DESCRIPTION
Package: sccomp
Commit: a6eb97c3aa640988772208671ebd6ae92efd947e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:37:21 +0930
Commit message:
Commit: a6eb97c3aa640988772208671ebd6ae92efd947e
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:37:21 +0930
Commit message:
Merge pull request #215 from MangiolaLaboratory/deprecate-hard-OLD_framework Remove deprecated old framework
Package: sccomp
Commit: 79ac1f6ed3bc3b2fd372ac360925055353c29703
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:14:28 +0930
Commit message:
Commit: 79ac1f6ed3bc3b2fd372ac360925055353c29703
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:14:28 +0930
Commit message:
Update documentation to reflect function name change for consistency
Package: sccomp
Commit: 7f0a1f716c4038ec557e71e5b914b26f79bcf299
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:12:31 +0930
Commit message:
Commit: 7f0a1f716c4038ec557e71e5b914b26f79bcf299
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 16:12:31 +0930
Commit message:
Update function names in documentation for consistency - Changed `sccomp_remove_unwanted_variation` to `sccomp_remove_unwanted_effects` in both README.md and introduction.Rmd to reflect the updated function name.
Package: sccomp
Commit: f7df6ce1241bfc593b1a30a9559c8d8970835177
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 15:16:33 +0930
Commit message:
Commit: f7df6ce1241bfc593b1a30a9559c8d8970835177
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 15:16:33 +0930
Commit message:
Remove deprecated old framework - Bumped package version to 2.1.12. - Completely removed the deprecated old framework (methods_OLD_framework) and all its associated functions and files. - Updated NAMESPACE to reflect the removal of deprecated methods.
Package: sccomp
Commit: a78f28cccc8b1fda275695d3b9cdb7d2a8bafdb6
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 15:02:11 +0930
Commit message:
Commit: a78f28cccc8b1fda275695d3b9cdb7d2a8bafdb6
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 15:02:11 +0930
Commit message:
Refactor error handling in check_and_install_cmdstanr function
Package: sccomp
Commit: dac35bb553939a2a85d279e9bbf458f860692c22
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 14:59:32 +0930
Commit message:
Commit: dac35bb553939a2a85d279e9bbf458f860692c22
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 14:59:32 +0930
Commit message:
Refactor GitHub Actions workflow to separate build and deploy jobs for pkgdown site
Package: sccomp
Commit: 388d6c289a06fb3ca2ae561bc9a09f6e8abfd54f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 14:14:46 +0930
Commit message:
Commit: 388d6c289a06fb3ca2ae561bc9a09f6e8abfd54f
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 14:14:46 +0930
Commit message:
Add environment configuration for GitHub Pages deployment in workflow_with_cmdstanr.yml
Package: sccomp
Commit: 4d979ac5747f961335f96ca02a6a580811c81b14
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 09:35:39 +0930
Commit message:
Commit: 4d979ac5747f961335f96ca02a6a580811c81b14
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-12 09:35:39 +0930
Commit message:
Add deployment step for GitHub Pages in workflow_with_cmdstanr.yml
Package: sccomp
Commit: 370fc8712c98f9f99632d6d4178b4bf58bce405c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 17:22:07 +0930
Commit message:
Commit: 370fc8712c98f9f99632d6d4178b4bf58bce405c
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 17:22:07 +0930
Commit message:
Merge pull request #212 from MangiolaLaboratory/add-gh-pages-back Add pkgdown workflow for R package deployment
Package: sccomp
Commit: 86dc4322fe875ec2ade35b7495a2cfe8ba5f4a88
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 17:11:58 +0930
Commit message:
Commit: 86dc4322fe875ec2ade35b7495a2cfe8ba5f4a88
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 17:11:58 +0930
Commit message:
Merge pull request #213 from MangiolaLaboratory/adapt-to-ggplot2-S7 Adapt to ggplot2 s7
Package: sccomp
Commit: e60ded7e97a7bbb54016dcb816d89fe0219f9004
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 16:22:11 +0930
Commit message:
Commit: e60ded7e97a7bbb54016dcb816d89fe0219f9004
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 16:22:11 +0930
Commit message:
Remove deprecated multipanel_theme.rda file following theme refactor
Package: sccomp
Commit: 0392e30ef9a260d8933a575c80c21ae10c99a400
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 16:07:59 +0930
Commit message:
Commit: 0392e30ef9a260d8933a575c80c21ae10c99a400
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 16:07:59 +0930
Commit message:
Refactor theme handling in plotting functions - Replaced the deprecated `create_multipanel_theme` function with `sccomp_theme` across all relevant plotting functions. - Updated the NAMESPACE file to export the new `sccomp_theme` function. - Removed the old `create_multipanel_theme` function and its documentation. - Enhanced the README to reflect the changes in theme usage for ggplot2 compatibility.
Package: sccomp
Commit: a98d9ffb4c94b70149b63fe541679fb64d6ac3e9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 14:58:59 +0930
Commit message:
Commit: a98d9ffb4c94b70149b63fe541679fb64d6ac3e9
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 14:58:59 +0930
Commit message:
Update version to 2.1.11 and introduce create_multipanel_theme function - Bumped package version to 2.1.11. - Added create_multipanel_theme function for generating a ggplot2 theme compatible with the new S7 system. - Updated plotting functions to utilize create_multipanel_theme instead of the deprecated multipanel_theme.
Package: sccomp
Commit: 4d1d4e396ceb4795e957c55b364df7bfa23d459b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 14:03:31 +0930
Commit message:
Commit: 4d1d4e396ceb4795e957c55b364df7bfa23d459b
Author: Stefano Mangiola <mangiolastefano@gmail.com>
Date: 2025-07-11 14:03:31 +0930
Commit message:
Add pkgdown workflow for R package deployment - Introduced a new job in the GitHub Actions workflow to build and deploy the pkgdown site. - Configured steps for R environment setup, installation of dependencies, and CmdStan. - Added deployment steps to upload the generated site artifacts to GitHub Pages.
Package: epistasisGA
Commit: 8fc478cc9bf9fcdbe3fc18ffe2007d7b5e552f2c
Author: mnodzenski <michael.nodzenski@gmail.com>
Date: 2025-07-14 22:37:57 -0400
Commit message:
Commit: 8fc478cc9bf9fcdbe3fc18ffe2007d7b5e552f2c
Author: mnodzenski <michael.nodzenski@gmail.com>
Date: 2025-07-14 22:37:57 -0400
Commit message:
address minor warnings and update documentation
Package: VennDetail
Commit: 5af227366ef81f31fa93aac46387f35b465cb5fc
Author: bioguo <bioguo@0587670464.vpn.umich.net>
Date: 2025-07-15 09:23:52 +0800
Commit message:
Commit: 5af227366ef81f31fa93aac46387f35b465cb5fc
Author: bioguo <bioguo@0587670464.vpn.umich.net>
Date: 2025-07-15 09:23:52 +0800
Commit message:
fixed import issues
Package: RiboCrypt
Commit: 54328932bd1a250961832674a1311020fa34e55d
Author: m-swirski <michal.swirski@student.uw.edu.pl>
Date: 2025-07-14 22:10:30 +0000
Commit message:
Commit: 54328932bd1a250961832674a1311020fa34e55d
Author: m-swirski <michal.swirski@student.uw.edu.pl>
Date: 2025-07-14 22:10:30 +0000
Commit message:
bump version
Package: RiboCrypt
Commit: 814c71e9b1b33b4ea6a0cb23c3cebcd2ae250926
Author: m-swirski <michal.swirski@student.uw.edu.pl>
Date: 2025-07-14 22:09:38 +0000
Commit message:
Commit: 814c71e9b1b33b4ea6a0cb23c3cebcd2ae250926
Author: m-swirski <michal.swirski@student.uw.edu.pl>
Date: 2025-07-14 22:09:38 +0000
Commit message:
merge master
Package: RiboCrypt
Commit: eb0eca18d51092b788dfa8e09e8631cc95d52768
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-15 00:00:40 +0200
Commit message:
Commit: eb0eca18d51092b788dfa8e09e8631cc95d52768
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-15 00:00:40 +0200
Commit message:
Fixed browseURL bug
Package: ORFik
Commit: 495edf968cc677eaad0d0e614bf618788b9e40f6
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-14 23:32:13 +0200
Commit message:
Commit: 495edf968cc677eaad0d0e614bf618788b9e40f6
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-14 23:32:13 +0200
Commit message:
Merged master Merge branch 'master' into devel # Conflicts: # DESCRIPTION
Package: ORFik
Commit: e60612d3769eb12183069a44dd91e0068b264652
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-14 23:24:05 +0200
Commit message:
Commit: e60612d3769eb12183069a44dd91e0068b264652
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-14 23:24:05 +0200
Commit message:
Added try wrap on gene info to avoid bioc error
Package: ORFik
Commit: bcf66883aa0e6242fbbedc026571c6d2d25a7ef5
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-03 12:10:41 +0200
Commit message:
Commit: bcf66883aa0e6242fbbedc026571c6d2d25a7ef5
Author: Roleren <hauken_heyken@hotmail.com>
Date: 2025-07-03 12:10:41 +0200
Commit message:
Improved star mapping
Package: ChIPDBData
Commit: a9ade1bcdc4f58c22c9fa9b54991ccf9905860bd
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-14 22:45:35 +0200
Commit message:
Commit: a9ade1bcdc4f58c22c9fa9b54991ccf9905860bd
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-14 22:45:35 +0200
Commit message:
updated package
Package: CytoGLMM
Commit: 63d7c01a439f345a7e5bbcf5beeb8b6547a17aff
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 21:26:17 +0200
Commit message:
Commit: 63d7c01a439f345a7e5bbcf5beeb8b6547a17aff
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 21:26:17 +0200
Commit message:
replaced = with <- in example doc
Package: BiocPkgTools
Commit: 667874aff0f2b02c3a43be588b5e8b51a4cda2df
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 15:23:18 -0400
Commit message:
Commit: 667874aff0f2b02c3a43be588b5e8b51a4cda2df
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 15:23:18 -0400
Commit message:
version bump 1.27.8
Package: BiocPkgTools
Commit: 79bce1d6d44eb925a4f38091ac7acfd844acf132
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 15:22:03 -0400
Commit message:
Commit: 79bce1d6d44eb925a4f38091ac7acfd844acf132
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 15:22:03 -0400
Commit message:
add names to attributes
Package: Rsubread
Commit: 56e26c0dfca096b46b878b4012c30cdfda46bc0b
Author: Yang Liao (Monash University) <yliao@m3s103.massive.org.au>
Date: 2025-07-15 05:09:03 +1000
Commit message:
Commit: 56e26c0dfca096b46b878b4012c30cdfda46bc0b
Author: Yang Liao (Monash University) <yliao@m3s103.massive.org.au>
Date: 2025-07-15 05:09:03 +1000
Commit message:
move to new computer
Package: Rsubread
Commit: 10c4b136e423ac5c7816c99301142881d8d80eeb
Author: Yang Liao (Monash University) <yliao@m3s103.massive.org.au>
Date: 2025-07-15 04:15:29 +1000
Commit message:
Commit: 10c4b136e423ac5c7816c99301142881d8d80eeb
Author: Yang Liao (Monash University) <yliao@m3s103.massive.org.au>
Date: 2025-07-15 04:15:29 +1000
Commit message:
Development for cellCounts + junc detection
Package: CytoGLMM
Commit: 88567319176d0a0b606ce636d873c052c1417854
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:59:36 +0200
Commit message:
Commit: 88567319176d0a0b606ce636d873c052c1417854
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:59:36 +0200
Commit message:
pkg mbest is back on CRAN revert back changes removing function cytoglmm
Package: CytoGLMM
Commit: b535e61daa9b8fa78f567d9ec2581b7ed6a62acf
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:34:26 +0200
Commit message:
Commit: b535e61daa9b8fa78f567d9ec2581b7ed6a62acf
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:34:26 +0200
Commit message:
Merge remote-tracking branch 'upstream/devel' into devel
Package: CytoGLMM
Commit: 7217faf7c071b978055f18f67b6cc6f555a8144a
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:24:38 +0200
Commit message:
Commit: 7217faf7c071b978055f18f67b6cc6f555a8144a
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:24:38 +0200
Commit message:
Revert "mbest package is back on CRAN again" This reverts commit 8a7f71973924e14fafb718a9d84fd14ef9d7d8ad.
Package: CytoGLMM
Commit: 8a7f71973924e14fafb718a9d84fd14ef9d7d8ad
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:23:33 +0200
Commit message:
Commit: 8a7f71973924e14fafb718a9d84fd14ef9d7d8ad
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:23:33 +0200
Commit message:
mbest package is back on CRAN again
Package: CytoGLMM
Commit: 156f0cf622bfd07dfb10e50fc83ef6e2154bc2df
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:21:37 +0200
Commit message:
Commit: 156f0cf622bfd07dfb10e50fc83ef6e2154bc2df
Author: ChristofSeiler <christof.seiler@gmail.com>
Date: 2025-07-14 19:21:37 +0200
Commit message:
Revert "removed mbest pkg" This reverts commit d8f1c695d3c6c1e456aa2742854c1ff8929a2190.
Package: raer
Commit: b4e6968d238fb9fea162a66187d8206436bf2070
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-14 11:51:03 -0600
Commit message:
Commit: b4e6968d238fb9fea162a66187d8206436bf2070
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-14 11:51:03 -0600
Commit message:
update docs and fix import of GenomeInfoDb
Package: raer
Commit: a01535ca14f5a23cb9ed1862298d6c952fd6108c
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-14 06:45:42 -0600
Commit message:
Commit: a01535ca14f5a23cb9ed1862298d6c952fd6108c
Author: Kent Riemondy <kent.riemondy@gmail.com>
Date: 2025-07-14 06:45:42 -0600
Commit message:
Merge remote-tracking branch 'upstream/devel' into devel
Package: raer
Commit: c11452f490f9d008e0ffc48f7d2008e8d3bac540
Author: Jay Hesselberth <jay.hesselberth@gmail.com>
Date: 2025-03-09 12:00:12 -0600
Commit message:
Commit: c11452f490f9d008e0ffc48f7d2008e8d3bac540
Author: Jay Hesselberth <jay.hesselberth@gmail.com>
Date: 2025-03-09 12:00:12 -0600
Commit message:
Add air config files
Package: raer
Commit: ec005f8fdc03ad50bf55c9a73714fa4ab753441c
Author: Jay Hesselberth <jay.hesselberth@cuanschutz.edu>
Date: 2025-03-08 08:36:48 -0700
Commit message:
Commit: ec005f8fdc03ad50bf55c9a73714fa4ab753441c
Author: Jay Hesselberth <jay.hesselberth@cuanschutz.edu>
Date: 2025-03-08 08:36:48 -0700
Commit message:
Reformat with air (#123)
Package: BiocBaseUtils
Commit: ff01b1f01e1e838a62dc40f5570be9b7c10c7db9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 13:12:23 -0400
Commit message:
Commit: ff01b1f01e1e838a62dc40f5570be9b7c10c7db9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 13:12:23 -0400
Commit message:
version bump 1.11.2
Package: BiocBaseUtils
Commit: 544a4d17e1f6c93f9b61b4fd62a1d271062d3cb9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 13:12:17 -0400
Commit message:
Commit: 544a4d17e1f6c93f9b61b4fd62a1d271062d3cb9
Author: LiNk-NY <marcel.ramos@sph.cuny.edu>
Date: 2025-07-14 13:12:17 -0400
Commit message:
update unit test to changes in checkInstalled
Package: ELViS
Commit: 8f3ffe4dd4aae7c2e803b59281147e81790a0a4d
Author: jlee307@uthsc.edu <jlee307@login2.cn.isaac.utk.edu>
Date: 2025-07-14 12:39:27 -0400
Commit message:
Commit: 8f3ffe4dd4aae7c2e803b59281147e81790a0a4d
Author: jlee307@uthsc.edu <jlee307@login2.cn.isaac.utk.edu>
Date: 2025-07-14 12:39:27 -0400
Commit message:
bug fix
Package: hiAnnotator
Commit: e641ca17d3f5d0cf1f221a8ca526a7d875c66a13
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-14 12:36:23 -0400
Commit message:
Commit: e641ca17d3f5d0cf1f221a8ca526a7d875c66a13
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2025-07-14 12:36:23 -0400
Commit message:
User requested deprecation
Package: proActiv
Commit: 1ed6022f1e51519f45a9ddfbad142c523136d703
Author: jleechung <joseph.lee@u.nus.edu>
Date: 2025-07-14 17:34:20 +0100
Commit message:
Commit: 1ed6022f1e51519f45a9ddfbad142c523136d703
Author: jleechung <joseph.lee@u.nus.edu>
Date: 2025-07-14 17:34:20 +0100
Commit message:
Import GenomeInfoDbData
Package: TFEA.ChIP
Commit: 758108e832796207c8d76f25912fb61007fb2230
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-14 16:39:02 +0200
Commit message:
Commit: 758108e832796207c8d76f25912fb61007fb2230
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-14 16:39:02 +0200
Commit message:
added meta
Package: TFEA.ChIP
Commit: 8782227fc65bcfbb6c003466a8803d2b2e123678
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-09 11:33:45 +0200
Commit message:
Commit: 8782227fc65bcfbb6c003466a8803d2b2e123678
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-09 11:33:45 +0200
Commit message:
bump v
Package: TFEA.ChIP
Commit: 7631dc676984e99cab45cbed2d1150164cc7ce36
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-09 11:07:52 +0200
Commit message:
Commit: 7631dc676984e99cab45cbed2d1150164cc7ce36
Author: yosra <yosraberrouayel@gmail.com>
Date: 2025-07-09 11:07:52 +0200
Commit message:
fixed vignette
Package: MSstatsPTM
Commit: 243a336d99aa51b2e26817e3eb64711c52f28bc3
Author: tonywu1999 <wu.anthon@northeastern.edu>
Date: 2025-07-14 09:56:27 -0400
Commit message:
Commit: 243a336d99aa51b2e26817e3eb64711c52f28bc3
Author: tonywu1999 <wu.anthon@northeastern.edu>
Date: 2025-07-14 09:56:27 -0400
Commit message:
version bump
Package: MSstatsPTM
Commit: 9eead60afd0281746a181fce13811ff57108a675
Author: tonywu1999 <wu.anthon@northeastern.edu>
Date: 2025-07-14 09:53:19 -0400
Commit message:
Commit: 9eead60afd0281746a181fce13811ff57108a675
Author: tonywu1999 <wu.anthon@northeastern.edu>
Date: 2025-07-14 09:53:19 -0400
Commit message:
fix(maxQuant): Remove unmodified peptides from PTM dataset (#116)
Package: MungeSumstats
Commit: 23e3b70226d001b4612adad7a92cb58e0f3eed3c
Author: Al-Murphy <alanmurph94@hotmail.com>
Date: 2025-07-14 08:49:05 -0400
Commit message:
Commit: 23e3b70226d001b4612adad7a92cb58e0f3eed3c
Author: Al-Murphy <alanmurph94@hotmail.com>
Date: 2025-07-14 08:49:05 -0400
Commit message:
Bug fix long tests ieugwasr
Package: GladiaTOX
Commit: 35786620d0f6ce63a795e1b640a5c97f44782768
Author: scanopm
Date: 2025-07-14 14:33:15 +0200
Commit message:
Commit: 35786620d0f6ce63a795e1b640a5c97f44782768
Author: scanopm
Date: 2025-07-14 14:33:15 +0200
Commit message:
Bump version</div>
Package: Chromatograms
Commit: 9a1758f00a77d96d6ef1fb10b2690bf7fbb03a45
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-14 14:10:13 +0200
Commit message:
Commit: 9a1758f00a77d96d6ef1fb10b2690bf7fbb03a45
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2025-07-14 14:10:13 +0200
Commit message:
Comments from Bioconductor submission
Package: GladiaTOX
Commit: 2fe9fa9a57edb5a01a1d98d45de58c63a293864a
Author: scanopm
Date: 2025-07-14 13:07:27 +0200
Commit message:
</div> </div>
Commit: 2fe9fa9a57edb5a01a1d98d45de58c63a293864a
Author: scanopm
Date: 2025-07-14 13:07:27 +0200
Commit message:
Merge branch 'master' into devel</div>
Package: GladiaTOX
Commit: 01c63a48494ccbeeaaa4a3b638d1866de1e85f69
Author: scanopm <Stephane.Cano@pmi.com>
Date: 2025-07-14 10:52:34 +0200
Commit message:
Commit: 01c63a48494ccbeeaaa4a3b638d1866de1e85f69
Author: scanopm <Stephane.Cano@pmi.com>
Date: 2025-07-14 10:52:34 +0200
Commit message:
Bump version
Package: GladiaTOX
Commit: a2558aad6bc8a097852bc581f7849c5830261e3e
Author: Stephane Cano <17638797+scanopm@users.noreply.github.com>
Date: 2025-07-14 08:44:44 +0200
Commit message:
Commit: a2558aad6bc8a097852bc581f7849c5830261e3e
Author: Stephane Cano <17638797+scanopm@users.noreply.github.com>
Date: 2025-07-14 08:44:44 +0200
Commit message:
Merge pull request #4 from MichaelChirico/patch-1 Add URL to DESCRIPTION
Package: GladiaTOX
Commit: 95569575153c2a2df1dbb215832a484e1a1fec4c
Author: Michael Chirico <chiricom@google.com>
Date: 2025-07-11 10:56:14 -0700
Commit message:
Commit: 95569575153c2a2df1dbb215832a484e1a1fec4c
Author: Michael Chirico <chiricom@google.com>
Date: 2025-07-11 10:56:14 -0700
Commit message:
Add URL to DESCRIPTION
Package: GladiaTOX
Commit: 2833f371ff1e63e20da8e0e31c0b8118b036b852
Author: Sylvain Gubian <sylvain.gubian@pmi.com>
Date: 2023-08-25 16:55:27 +0200
Commit message:
Commit: 2833f371ff1e63e20da8e0e31c0b8118b036b852
Author: Sylvain Gubian <sylvain.gubian@pmi.com>
Date: 2023-08-25 16:55:27 +0200
Commit message:
Merge pull request #3 from martin-g/replace-RMySQL-with-RMariaDB Replace RMySQL with RMariaDB
Package: GladiaTOX
Commit: b0cd73256a361697a1bce4bda1053dbf9e4cf5e2
Author: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
Date: 2023-08-15 13:34:23 +0300
Commit message:
Commit: b0cd73256a361697a1bce4bda1053dbf9e4cf5e2
Author: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
Date: 2023-08-15 13:34:23 +0300
Commit message:
Replace RMySQL with RMariaDB As per https://github.com/r-dbi/RMySQL#rmysql: NOTE: this package is being phased out in favor of the new RMariaDB package. Bump the version to 1.12.0 Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
Package: GladiaTOX
Commit: 3b36a05017bd67d54a1610f945e0281c7e24918b
Author: scano <Stephane.Cano@pmi.com>
Date: 2022-04-07 13:44:54 +0200
Commit message:
Commit: 3b36a05017bd67d54a1610f945e0281c7e24918b
Author: scano <Stephane.Cano@pmi.com>
Date: 2022-04-07 13:44:54 +0200
Commit message:
fix masked arg
Package: GladiaTOX
Commit: 694e0325c0686ef990915aa112abe7845a8668bf
Author: scano <Stephane.Cano@pmi.com>
Date: 2022-04-01 09:15:08 +0200
Commit message:
Commit: 694e0325c0686ef990915aa112abe7845a8668bf
Author: scano <Stephane.Cano@pmi.com>
Date: 2022-04-01 09:15:08 +0200
Commit message:
Add missing documentation
Package: DuplexDiscovereR
Commit: 2d055bde5103e9099bbb3a004a7b12668bd74ca0
Author: EgorS <egorsemenchenko@gmail.com>
Date: 2025-07-14 11:12:47 +0200
Commit message:
Commit: 2d055bde5103e9099bbb3a004a7b12668bd74ca0
Author: EgorS <egorsemenchenko@gmail.com>
Date: 2025-07-14 11:12:47 +0200
Commit message:
added roxygen doc for the new args
Package: SingleR
Commit: 0823a7bf4a119a41e75719cc32cd34300bf03680
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 23:16:42 -0700
Commit message:
Commit: 0823a7bf4a119a41e75719cc32cd34300bf03680
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 23:16:42 -0700
Commit message:
Bump to trigger recompilation for new C++ libraries.
Package: scrapper
Commit: 3924f5b630bc4c65d28ab5a6e5b5ad385a7b05bf
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 23:16:08 -0700
Commit message:
Commit: 3924f5b630bc4c65d28ab5a6e5b5ad385a7b05bf
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 23:16:08 -0700
Commit message:
Bump to trigger recompilation for new C++ libraries.
Package: beachmat.tiledb
Commit: c0c20e1d4ebac8aa5bd59e882a141f9fa850438a
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 22:24:42 -0700
Commit message:
Commit: c0c20e1d4ebac8aa5bd59e882a141f9fa850438a
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 22:24:42 -0700
Commit message:
Namespace fixed-width types for standards-compliance.
Package: beachmat.tiledb
Commit: 20cfa38943b3f834b93634d0dd509fbafa2ccb63
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 22:19:22 -0700
Commit message:
Commit: 20cfa38943b3f834b93634d0dd509fbafa2ccb63
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 22:19:22 -0700
Commit message:
Merge remote-tracking branch 'upstream/devel'
Package: beachmat.tiledb
Commit: 51d92094f8e6c694300afd14ee85917c9cdcb0e0
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-01-06 10:35:10 -0800
Commit message:
Commit: 51d92094f8e6c694300afd14ee85917c9cdcb0e0
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-01-06 10:35:10 -0800
Commit message:
Added BBS badges to the README.
Package: beachmat.hdf5
Commit: 80e7ae65cb5ac71b7b759356d0236540cbe56a7b
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:33:57 -0700
Commit message:
Commit: 80e7ae65cb5ac71b7b759356d0236540cbe56a7b
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:33:57 -0700
Commit message:
Use more appropriate integer types in the C++ code. Also include the required standard headers and namespace fixed-width types.
Package: beachmat
Commit: 6cf7450fff8cc7599b7d10d5d5e403bc95ec2b5a
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:19:54 -0700
Commit message:
Commit: 6cf7450fff8cc7599b7d10d5d5e403bc95ec2b5a
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:19:54 -0700
Commit message:
Updates for the latest tatami library. The biggest change is the use of a interface for the delayed isometric operations, which streamlines compilation by avoiding redundancy. Also some minor fixes to include standard headers, avoid integer overflow.
Package: assorthead
Commit: ae0ac1926770110e6a6977ec1aeded7c6f9fdf5d
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:33:03 -0700
Commit message:
Commit: ae0ac1926770110e6a6977ec1aeded7c6f9fdf5d
Author: LTLA <infinite.monkeys.with.keyboards@gmail.com>
Date: 2025-07-13 18:33:03 -0700
Commit message:
Updated versions of the vendored tatami libraries. This also requires updates to libscran libraries for scrapper to build.
Package: QTLExperiment
Commit: 38de9a9a7b0c90b878e4ad4d371cce47c1928429
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:29:44 +1000
Commit message:
Commit: 38de9a9a7b0c90b878e4ad4d371cce47c1928429
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:29:44 +1000
Commit message:
Update NEWS and version bump
Package: multistateQTL
Commit: eef556dbb2bb73c8e944f1d47656e7c2f5d43d44
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:27:18 +1000
Commit message:
Commit: eef556dbb2bb73c8e944f1d47656e7c2f5d43d44
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:27:18 +1000
Commit message:
Updated NEWS and version bump
Package: multistateQTL
Commit: 1f0a24b7d2d544376c1900cf470cb4376c8bba0b
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:04:03 +1000
Commit message:
Commit: 1f0a24b7d2d544376c1900cf470cb4376c8bba0b
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 14:04:03 +1000
Commit message:
Update testing to work with upcoming ggplot2 update - Related to ggplot2 major update 4.0.0. - Changed expect_equal() with class() to the new ggplot2::is_ggplot()
Package: QTLExperiment
Commit: eb50d428c1aa8d428558324916af060bbbb24b4b
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 13:59:32 +1000
Commit message:
Commit: eb50d428c1aa8d428558324916af060bbbb24b4b
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 13:59:32 +1000
Commit message:
Merge branch 'devel' of https://gitlab.svi.edu.au/biocellgen-public/qtlexperiment into devel
Package: QTLExperiment
Commit: 191f0b8199708f985603c3201325075b5ac8bd4e
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 13:58:46 +1000
Commit message:
Commit: 191f0b8199708f985603c3201325075b5ac8bd4e
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2025-07-14 13:58:46 +1000
Commit message:
Update to subsetting - Make subset a generic function - Typo in rowData documentation - Trying to remove warnings in subsetting documentation
Package: QTLExperiment
Commit: a792069924792f705cdf007d641a1c40187d2fd4
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:22:14 +1000
Commit message:
Commit: a792069924792f705cdf007d641a1c40187d2fd4
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:22:14 +1000
Commit message:
Delete .gitlab-ci.yml
Package: QTLExperiment
Commit: ea52732dd7dd5619e47900aa9b842e1ccd7f54ef
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:20:18 +1000
Commit message:
Commit: ea52732dd7dd5619e47900aa9b842e1ccd7f54ef
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:20:18 +1000
Commit message:
Update .gitlab-ci.yml file
Package: QTLExperiment
Commit: c9858e187632511a24402d043cfecb22cc74f5e2
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:17:04 +1000
Commit message:
Commit: c9858e187632511a24402d043cfecb22cc74f5e2
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:17:04 +1000
Commit message:
Update .gitlab-ci.yml file
Package: QTLExperiment
Commit: 43e6119b2ce7971446373711b3e1953ee64b1863
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:16:22 +1000
Commit message:
Commit: 43e6119b2ce7971446373711b3e1953ee64b1863
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:16:22 +1000
Commit message:
Update .gitlab-ci.yml file
Package: QTLExperiment
Commit: dacd8e50c6247bf9b385c79b8dc979171ef8f51e
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:11:00 +1000
Commit message:
Commit: dacd8e50c6247bf9b385c79b8dc979171ef8f51e
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 16:11:00 +1000
Commit message:
Update .gitlab-ci.yml file
Package: QTLExperiment
Commit: 6524779805910898221199df5c6870d923333388
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 15:59:12 +1000
Commit message:
Commit: 6524779805910898221199df5c6870d923333388
Author: Amelia Dunstone <amelia.dunstone@svi.edu.au>
Date: 2025-05-27 15:59:12 +1000
Commit message:
Update .gitlab-ci.yml file
Package: MerfishData
Commit: 321ff75fe7973f5aa47635707e11844f8e048c60
Author: lgeistlinger <ludwig.geistlinger@gmail.com>
Date: 2025-07-13 19:51:56 -0400
Commit message:
Commit: 321ff75fe7973f5aa47635707e11844f8e048c60
Author: lgeistlinger <ludwig.geistlinger@gmail.com>
Date: 2025-07-13 19:51:56 -0400
Commit message:
fix SpatialExperiment example
Package: CPSM
Commit: 372c80eb378f0b02d3e6d80653233d14d3792837
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:59:42 -0400
Commit message:
Commit: 372c80eb378f0b02d3e6d80653233d14d3792837
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:59:42 -0400
Commit message:
Updated vignettes/CPSM.Rmd to change the date
Package: CPSM
Commit: 571cde66b3087fadb33f287985d9a03f99b5d2df
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:53:33 -0400
Commit message:
Commit: 571cde66b3087fadb33f287985d9a03f99b5d2df
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:53:33 -0400
Commit message:
Merge save-1.1.3-changes into devel, resolved conflicts
Package: CPSM
Commit: f9e15a35bab752cdc31a25c708e736cb7bac3c70
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:48:18 -0400
Commit message:
Commit: f9e15a35bab752cdc31a25c708e736cb7bac3c70
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:48:18 -0400
Commit message:
Updated R/km_overlay_plot_f.R to improve figure; updated R/MTLR_pred_model_f.R to make a corection; updated DESCRIPTION to update contributor and data license ; Bump version to 1.1.3
Package: CPSM
Commit: 40b13076b0b771a8e3abfda2a4a77769c654093a
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:44:24 -0400
Commit message:
Commit: 40b13076b0b771a8e3abfda2a4a77769c654093a
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:44:24 -0400
Commit message:
Updated R/km_overlay_plot_f.R to improve figure; updated R/MTLR_pred_model_f.R to make a corection; updated DESCRIPTION to update contributor and data license ; Bump version to 1.1.3
Package: CPSM
Commit: 43007dfe4e11349de6fe45170c3470bcdfa305a0
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:28:14 -0400
Commit message:
Commit: 43007dfe4e11349de6fe45170c3470bcdfa305a0
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:28:14 -0400
Commit message:
Updated R/km_overlay_plot_f.R to improve figure; updated DESCRIPTION to update contributor and data license ; Bump version to 1.1.3
Package: CPSM
Commit: 3e08166935b3247acfad4712f63817aca642a06d
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:20:35 -0400
Commit message:
Commit: 3e08166935b3247acfad4712f63817aca642a06d
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:20:35 -0400
Commit message:
Work in progress: save local changes before rebase
Package: CPSM
Commit: 1fe64fa5961b0f481d784338fc25495c9b462de4
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:11:02 -0400
Commit message:
Commit: 1fe64fa5961b0f481d784338fc25495c9b462de4
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:11:02 -0400
Commit message:
Move CC0 license to inst/licenses to avoid R loading error
Package: CPSM
Commit: f8b074e84e5f5f75e09656e21652b1313af0b398
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:01:59 -0400
Commit message:
Commit: f8b074e84e5f5f75e09656e21652b1313af0b398
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-13 17:01:59 -0400
Commit message:
Updated R/km_overlay_plot_f.R to improve figure; updated DESCRIPTION to update contributor and data license ; Bump version to 1.1.3
Package: CPSM
Commit: 486ed41b668ef0a6a96d73924c4bfb693195e7fa
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-07-11 10:20:50 -0400
Commit message:
Commit: 486ed41b668ef0a6a96d73924c4bfb693195e7fa
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-07-11 10:20:50 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: ae023d94ecedc7fd0093d8e82435e43752bf3160
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 14:01:09 -0400
Commit message:
Commit: ae023d94ecedc7fd0093d8e82435e43752bf3160
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 14:01:09 -0400
Commit message:
Update km_overlay_plot_f.R function and documentation, DESCRIPTION, NEWS.md vignettes/CPSM.Rmd , version bumped to 1.1.3
Package: CPSM
Commit: eff8e6c499b7bd610135c9acc2abb08eeb883632
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 13:33:18 -0400
Commit message:
Commit: eff8e6c499b7bd610135c9acc2abb08eeb883632
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 13:33:18 -0400
Commit message:
Update km_overlay_plot_f.R function and documentation, DESCRIPTION, NEWS.md vignettes/CPSM.Rmd
Package: CPSM
Commit: 72181bd3ed8c8f1071661141623ac200b62a9e3e
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 13:32:17 -0400
Commit message:
Commit: 72181bd3ed8c8f1071661141623ac200b62a9e3e
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-09 13:32:17 -0400
Commit message:
Update km_overlay_plot_f.R function and documentation, DESCRIPTION, NEWS.md vignettes/CPSM.Rmd
Package: CPSM
Commit: f9ffdaf685db48124f0e9efc8c45cf3c61aa119f
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-01 13:46:52 -0400
Commit message:
Commit: f9ffdaf685db48124f0e9efc8c45cf3c61aa119f
Author: Harpreet Kaur <hks04180@gmail.com>
Date: 2025-07-01 13:46:52 -0400
Commit message:
Update R/km_overlay_plot_f.R file to improve image
Package: CPSM
Commit: ae9d6810c0e135b17a1246d0d5d7649b3759c2ce
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:16:52 -0400
Commit message:
Commit: ae9d6810c0e135b17a1246d0d5d7649b3759c2ce
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:16:52 -0400
Commit message:
Update README.md
Package: CPSM
Commit: b2626007fb119c630170589a957dd5fb2748f811
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:16:24 -0400
Commit message:
Commit: b2626007fb119c630170589a957dd5fb2748f811
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:16:24 -0400
Commit message:
Update README.md
Package: CPSM
Commit: a413701cda77105e34ae40e024c3a965b34f0ebf
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:15:02 -0400
Commit message:
Commit: a413701cda77105e34ae40e024c3a965b34f0ebf
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:15:02 -0400
Commit message:
Update README.md
Package: CPSM
Commit: c83e2fe030a2c13aa6deaaad33ea5926bcd92b8b
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:11:37 -0400
Commit message:
Commit: c83e2fe030a2c13aa6deaaad33ea5926bcd92b8b
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:11:37 -0400
Commit message:
Update README.md
Package: CPSM
Commit: edfefe0dc25a5afb3227e41956d108a8c10e1f5a
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:11:15 -0400
Commit message:
Commit: edfefe0dc25a5afb3227e41956d108a8c10e1f5a
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-05 13:11:15 -0400
Commit message:
Update README.md
Package: CPSM
Commit: d7247a01d0585ed9ea99099e0bd1f9cc22e82584
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-01 19:30:59 -0400
Commit message:
Commit: d7247a01d0585ed9ea99099e0bd1f9cc22e82584
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-05-01 19:30:59 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: 30933eb8fe3fe8af75e11258aba371a75bb747dd
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:46:34 -0400
Commit message:
Commit: 30933eb8fe3fe8af75e11258aba371a75bb747dd
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:46:34 -0400
Commit message:
Update CPSM.Rmd
Package: CPSM
Commit: 945559261813c96dc3d916825da6e3ef9e15e880
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:28:43 -0400
Commit message:
Commit: 945559261813c96dc3d916825da6e3ef9e15e880
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:28:43 -0400
Commit message:
Update CPSM.Rmd
Package: CPSM
Commit: bc708256c2a68fab78b8e969a48a158b5178fcbe
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:27:59 -0400
Commit message:
Commit: bc708256c2a68fab78b8e969a48a158b5178fcbe
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-29 10:27:59 -0400
Commit message:
Update CPSM.Rmd
Package: CPSM
Commit: 6ef45f14c833a09bd107bc07f0a09134564e373b
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-28 19:06:13 -0400
Commit message:
Commit: 6ef45f14c833a09bd107bc07f0a09134564e373b
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-28 19:06:13 -0400
Commit message:
Update README.md
Package: CPSM
Commit: e92e787e934a68c3d7b969eaceea860ff9d04209
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-26 21:49:06 -0400
Commit message:
Commit: e92e787e934a68c3d7b969eaceea860ff9d04209
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-26 21:49:06 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: 29db77cd2708de171563d594ed9d54b620a2eddf
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 14:01:07 -0400
Commit message:
Commit: 29db77cd2708de171563d594ed9d54b620a2eddf
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 14:01:07 -0400
Commit message:
Update README.md
Package: CPSM
Commit: fe0dd0f2643d4c7d123336763b7cc29533d07935
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:59:22 -0400
Commit message:
Commit: fe0dd0f2643d4c7d123336763b7cc29533d07935
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:59:22 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: 900b2c42e1ea72ede3066b2151c19cf411d2ea15
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:47:40 -0400
Commit message:
Commit: 900b2c42e1ea72ede3066b2151c19cf411d2ea15
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:47:40 -0400
Commit message:
Update .gitignore
Package: CPSM
Commit: abf5949a2e208ecdb157e99c53f9e32e461f174d
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:46:45 -0400
Commit message:
Commit: abf5949a2e208ecdb157e99c53f9e32e461f174d
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 13:46:45 -0400
Commit message:
Update DESCRIPTION
Package: CPSM
Commit: 30ffe9576f233ea06a4ac977c63808dc21b3afae
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 08:34:31 -0400
Commit message:
Commit: 30ffe9576f233ea06a4ac977c63808dc21b3afae
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 08:34:31 -0400
Commit message:
Update CPSM.Rmd
Package: CPSM
Commit: b185800229e33200ccafe2059bff0502f80f3ca6
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 01:47:20 -0400
Commit message:
Commit: b185800229e33200ccafe2059bff0502f80f3ca6
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-25 01:47:20 -0400
Commit message:
Update DESCRIPTION
Package: CPSM
Commit: a77c3e79c3b423f1c52c6cdc25e9a07f62849244
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:20:02 -0400
Commit message:
Commit: a77c3e79c3b423f1c52c6cdc25e9a07f62849244
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:20:02 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: 4e1bd98e68bc45cc59875cdc3406353f934cfdf3
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:19:09 -0400
Commit message:
Commit: 4e1bd98e68bc45cc59875cdc3406353f934cfdf3
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:19:09 -0400
Commit message:
Add files via upload
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Commit: ea1381cbfae91720cbfffab34c871de26df668ef
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:18:50 -0400
Commit message:
Commit: ea1381cbfae91720cbfffab34c871de26df668ef
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:18:50 -0400
Commit message:
Add files via upload
Package: CPSM
Commit: 6f4e584f2687827f661bf04c018d8b892dc7f7fe
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:18:23 -0400
Commit message:
Commit: 6f4e584f2687827f661bf04c018d8b892dc7f7fe
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:18:23 -0400
Commit message:
Add files via upload
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Commit: 605dc2b486a46327d52514a349e2dfdb0ce55314
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:17:59 -0400
Commit message:
Commit: 605dc2b486a46327d52514a349e2dfdb0ce55314
Author: Harpreet kaur <46756503+hks5august@users.noreply.github.com>
Date: 2025-04-24 22:17:59 -0400
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Add files via upload
</div> </div>