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GIT Logs

This is a list of recent commits to git.bioconductor.org, the master(development) branch of the Bioconductor GIT repository.

This list is also available as an RSS feed (master branch), and RSS feed (release branch)

Package: fishpond
Commit: c3773c01286032b961f436cc4d79a644692298f2
Author: mikelove <michaelisaiahlove@gmail.com>
Date: 2021-11-30 14:29:54 -0500
Commit message:

 just refer to a1 and a2 as effect and non-effect
 
Package: HPiP
Commit: 8e79e4d7200df8c642aec29dbfd2d942b9132a04
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-30 11:23:25 -0800
Commit message:

 Change version from 1.99.1 to 1.1.1 (1.99.1 never propagated so it's ok)
 
Package: cBioPortalData
Commit: 2304ab94f88863e91211e4cd47824ef90abb816d
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-30 12:20:53 -0500
Commit message:

 version bump 2.7.3
 
Package: cBioPortalData
Commit: 6bbdef988c1ad2ca6ae69bf3745c8cb9f60ae3bd
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-30 12:20:52 -0500
Commit message:

 set AnVIL version dep
 
Package: cBioPortalData
Commit: ac1a368119e79757afae96f000302f4ced924ce9
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-19 20:52:32 -0500
Commit message:

 updates related to BiocCheck
 
Package: cBioPortalData
Commit: 41d462937b1241331bb2fe8c1c94f94a0d2f7aec
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-19 20:52:01 -0500
Commit message:

 add api_reference_headers in Service spec
 
Package: cBioPortalData
Commit: 1b56aa4d9dfd743ff5366a34034a9f0fe2072a57
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-12 11:44:54 -0500
Commit message:

 add api_header to cBioPortal class; use token to auth
 
Package: cBioPortalData
Commit: dfe694d4be9ed9fa79fd805fef16ea7ecdb01a3b
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-04 19:06:30 -0400
Commit message:

 update README
 
Package: cBioPortalData
Commit: 54fb68cbd6c5d53d4e0fdd104b0c54449b39fa4c
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-04 18:55:01 -0400
Commit message:

 update versions in Build Conda Docker recipe
 
Package: cBioPortalData
Commit: dfffe33db30f622145a4e293649206c26f4615ec
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-04 18:38:50 -0400
Commit message:

 add BiocCheck to tests
 
Package: cBioPortalData
Commit: 62b6ec4f85a9201756601a94f1c3810eb9371e97
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-02 10:01:08 -0400
Commit message:

 remove slack notification
 
Package: AnnotationHub
Commit: 5f03a3c7e77530f02d0202556f808f3a6e766eb4
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-30 09:02:04 -0800
Commit message:

 Safe to call updateObject() on QFeatures objects

Starting with QFeatures 1.5.2, updateObject() works on QFeatures objects
so these objects no longer need special treatment.
 
Package: BOBaFIT
Commit: 1b7d87afa4e570d0164f1e40e8cbc9f44daae626
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 17:27:57 +0100
Commit message:

 v.23
 
Package: tricycle
Commit: 407096b66be86887e8c0cf48b1c3c5eb6331177c
Author: Shijie C. Zheng <shijieczheng@gmail.com>
Date: 2021-11-30 11:10:45 -0500
Commit message:

 bump version
 
Package: tricycle
Commit: adcbb4a19ce62d21051ac8de95035d19ad6e22c1
Author: Shijie C. Zheng <shijieczheng@gmail.com>
Date: 2021-11-30 11:08:54 -0500
Commit message:

 bump version
 
Package: tricycle
Commit: 5cb6450472adabd0e0190af9967ccd0262615b9f
Author: Shijie C. Zheng <shijieczheng@gmail.com>
Date: 2021-11-30 11:06:39 -0500
Commit message:

 add stage labels to circular legend
 
Package: tricycle
Commit: d4c4ff876c470554ff41f58e6b0181d680278e05
Author: Shijie C. Zheng <shijieczheng@gmail.com>
Date: 2021-11-30 11:04:19 -0500
Commit message:

 add stage labels to circular legend
 
Package: BOBaFIT
Commit: ed3468e58ab623d84518b78884317bc3c61ffc49
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 17:07:53 +0100
Commit message:

 version 22
 
Package: BOBaFIT
Commit: 7b80e9ec14004e3bf295786ded13f9d00b1a671c
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 17:05:33 +0100
Commit message:

 description file corrected
 
Package: BOBaFIT
Commit: 5a88f3e022b8e5933f72d3f82acefb1f348635e4
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 16:45:33 +0100
Commit message:

 version 21
 
Package: BOBaFIT
Commit: e9e82bb31fffbc833a9347962c864db34f9f9c8f
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 16:15:29 +0100
Commit message:

 version 20
 
Package: BOBaFIT
Commit: 5c087f355736cb13bdbe4836434f5438c902992d
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-30 16:02:55 +0100
Commit message:

 version 19
 
Package: BOBaFIT
Commit: 6643fb5dfc93991439ef4abe1b4afd892b74d3b7
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-25 11:56:59 +0100
Commit message:

 version 18
 
Package: PhyloProfile
Commit: 94586dd8f0493342561732f1689de2e65ec8acc9
Author: trvinh <trvinh@gmail.com>
Date: 2021-11-30 12:41:13 +0100
Commit message:

 fixed loading cluster from config
 
Package: combi
Commit: f95882a998f2901dd023365d380adf79eb20b61e
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-30 11:34:14 +0100
Commit message:

 duplicate chunk label
 
Package: combi
Commit: 5765da8e87262bd03ae63c70bbc418ba0fb3cc46
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-30 11:29:42 +0100
Commit message:

 Come explanation on tweaking parameters
 
Package: Pi
Commit: 69e9b1046791ab0a7e756d02c0b46bf3f279fa44
Author: fh12355 <hfang@hfang.local>
Date: 2021-11-30 16:53:10 +0800
Commit message:

 Update to the version 2.7.3
 
Package: HPiP
Commit: 4302658585035e1f2858976b3f5e5da497737792
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 21:37:35 -0600
Commit message:

 changed the line
 
Package: HPiP
Commit: 4e128967aebbbd92642a1436984e637a56573524
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 21:21:47 -0600
Commit message:

 updated version
 
Package: HPiP
Commit: c83f8344ce9d3dac146590597c993d2883d18baa
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 21:19:40 -0600
Commit message:

 updated version
 
Package: HPiP
Commit: 8962dfa0489c350ec17908379aa10ee1b02bfd5f
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 20:47:30 -0600
Commit message:

 changed version
 
Package: HPiP
Commit: 4055c05ad0f2bc7bf3306644a8ac5cce32750ca6
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 20:46:17 -0600
Commit message:

 chnaged some lines
 
Package: crisprBase
Commit: c204c7c2e0f543233930bdb2a01c8542ff83d4bf
Author: fortinj2 <fortin.jeanphilippe@gene.com>
Date: 2021-11-29 16:50:45 -0800
Commit message:

 Updated date
 
Package: crisprBase
Commit: 3e34bff1366eb8228313f0e2eac5f0fa867a89f7
Author: fortinj2 <fortin.jeanphilippe@gene.com>
Date: 2021-11-29 16:31:38 -0800
Commit message:

 Merge branch 'weights_fix'
 
Package: crisprBase
Commit: 500ab390a32eeaf07dd73720ba98ae349567571b
Author: fortinj2 <fortin.jeanphilippe@gene.com>
Date: 2021-11-29 16:31:05 -0800
Commit message:

 Making lazydata=False
 
Package: crisprBase
Commit: f5ac006fa7b786c41ce8f98fa3cc022529216956
Author: fortinj2 <fortin.jeanphilippe@gene.com>
Date: 2021-11-29 11:55:45 -0800
Commit message:

 Updated AsCas12a
 
Package: crisprBase
Commit: 386538fb2ff07c3ed04ebebe819e1aaa846cf5ef
Author: fortinj2 <fortin.jeanphilippe@gene.com>
Date: 2021-11-29 09:40:56 -0800
Commit message:

 Fixed weights() when expand=TRUE
 
Package: HPiP
Commit: ce2eb691752c006ba389143cffdc468417fbbed7
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 18:01:36 -0600
Commit message:

 Added new line
 
Package: HPiP
Commit: 5924cfbb311b78d1b858f88af941785b63c1e96c
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:46:27 -0600
Commit message:

 added the import
 
Package: HPiP
Commit: 4d4c9daf9704b19897afc98d859aaf4d8acd4cfe
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:44:38 -0600
Commit message:

 chnaged one line
 
Package: HPiP
Commit: 14fe297f55d213191140d015b349ddd95d03450c
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:19:04 -0600
Commit message:

 changed one
 
Package: HPiP
Commit: df2474d331cdfe60d79548781161614383996de8
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:17:00 -0600
Commit message:

 changed one line
 
Package: HPiP
Commit: 1af8f473dda21c505e63f0fd3f0d17d389d10940
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:11:29 -0600
Commit message:

 changed import file
 
Package: HPiP
Commit: 26f4a0205c2be7b0515d53cbc841258ee8db6b1e
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:07:22 -0600
Commit message:

 changed man files
 
Package: HPiP
Commit: d068766ff3ff160d035915d481309b72e00c5c26
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 16:04:41 -0600
Commit message:

 changed namespace
 
Package: HPiP
Commit: 5c6b0f9a8debd82cd866018571665d442a796351
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 15:40:42 -0600
Commit message:

 changed vignette
 
Package: ggmanh
Commit: 5f059baf111613731b3cf674bcf3ced5e92811e8
Author: Lee, John S <john.lee@abbvie.com>
Date: 2021-11-29 14:59:19 -0600
Commit message:

 Fix annotations not using real positions.
 
Package: HPiP
Commit: 6700b07a4c5584e19a535475df76b96dc9d7586a
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 15:16:38 -0600
Commit message:

 add enrichment for all predicted human proteins
 
Package: HPiP
Commit: b669fbf0d595893b4a20500bf2d70fe3d4dc267a
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 15:15:41 -0600
Commit message:

 add enrichment for complexes
 
Package: BiocCheck
Commit: 8884d3dd9c3654268a4b7fe5e462ec6a0cfb6c8b
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-29 16:12:00 -0500
Commit message:

 version bump 1.31.14
 
Package: BiocCheck
Commit: 30b3a3d97d55b778255d7a1b03522f2589d815a6
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-29 16:11:58 -0500
Commit message:

 update NEWS
 
Package: BiocCheck
Commit: abf5d80961d9152bf564cd5d497f9e39f6185f21
Author: Marcel Ramos <LiNk-NY@users.noreply.github.com>
Date: 2021-11-29 16:10:51 -0500
Commit message:

 Merge pull request #147 from Bioconductor/gitclone

update BiocCheckGitClone 
Package: BiocCheck
Commit: 050773c33fe816081dd5d997c6e10127bfa0e773
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-29 14:10:56 -0500
Commit message:

 use a general .get_package_dir function
 
Package: BiocCheck
Commit: 89d84b3219ff894ff0d736b1acc9b6b033ff1dd2
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-29 13:09:51 -0500
Commit message:

 update typo
 
Package: BiocCheck
Commit: 8150ed109ea953bfed560ff5894031e139c44a40
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-29 13:01:53 -0500
Commit message:

 update BiocCheckGitClone
 
Package: HPiP
Commit: 67c9f4262ff34ae0cb56c6fec251957c92ab5b4c
Author: Matine <matinerb.94@gmail.com>
Date: 2021-11-29 15:09:24 -0600
Commit message:

 Added clustering algorithms
 
Package: AnVIL
Commit: fddbb43c25d6dcb1eb7b0e415d04f81c5fcf80b9
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-29 14:56:06 -0500
Commit message:

 clean up unit tests and imports
 
Package: AnVIL
Commit: 9b232cc0b996a1b46a0ecb757d1fd2b5e4f0f984
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-29 14:34:43 -0500
Commit message:

 version bump
 
Package: AnVIL
Commit: d12d630922d0dbd0fa6333a6ac0bdc6f041a40ad
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-29 14:32:46 -0500
Commit message:

 add (non-exported) repository_stats() to summarize binary repos

- number of binary software packages, number of out-of-date
  binary software packages
 
Package: AnVIL
Commit: 1eeeb97ec986df7e7b41082e822915bedd86be14
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-29 14:31:49 -0500
Commit message:

 update BINARY_BASE_URL to https://bioconductor.org/pacakges

- access/.htaccess redirect on master.bioconductor.org to current
  binary repository location
 
Package: AnVIL
Commit: 28885fa96c270fb2d8479bc09b491e0f1217cb7a
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-19 16:25:23 -0500
Commit message:

 allow service to access API reference URL with headers

- closes #42
 
Package: phyloseq
Commit: 9b211d94fbe065e1d2c55d61177958ca15129bd5
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2021-11-29 09:47:23 -0800
Commit message:

 ade4 depend spec to help with Debian installs
 
Package: phyloseq
Commit: 6d5506502c887cac5289ed8a7b679a2ffaabb366
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2021-11-29 09:40:27 -0800
Commit message:

 Merge remote-tracking branch 'upstream/master'
 
Package: phyloseq
Commit: dc35470498c79284231d41d1add1a74940f51fb7
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2020-07-25 16:01:15 -0700
Commit message:

 Fix typo in doc Rox source for refseq accessor 
Package: phyloseq
Commit: ea6e7acc1debffae4322d13881351929b9d09cd0
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2020-02-13 18:04:26 -0800
Commit message:

 add phyloseq logo

Thanks to
Anjile An, MPH
twitter: @anjile_an
 
Package: phyloseq
Commit: 3fb790f274c2e39f949da3ae039370d969ba4a95
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2019-04-27 16:20:09 -0700
Commit message:

 Merge pull request #1127 from mikemc/patch-1

Fix reference to deprecated function 
Package: phyloseq
Commit: a5914c95e087769e8c623c54ecdd7451a2aa5217
Author: Paul J. McMurdie <joey711@gmail.com>
Date: 2019-04-27 16:19:42 -0700
Commit message:

 Merge pull request #1128 from mikemc/patch-2

Fix instruction for the `prune` option of `filter_taxa()` 
Package: phyloseq
Commit: 9c49f3a0af4852469ed3b64840fa741a9815eb7c
Author: Michael McLaren <m.mclaren42@gmail.com>
Date: 2019-04-27 18:03:37 -0400
Commit message:

 Fix instructions for the `prune` option 
Package: phyloseq
Commit: ed5cc358a44311c2f241c6b369a4369328111a37
Author: Michael McLaren <m.mclaren42@gmail.com>
Date: 2019-04-27 17:49:12 -0400
Commit message:

 Fix reference to deprecated function

Update the reference to "subset_species" in the "See Also" section of the docs for `subset_samples()` to refer to "subset_taxa". 
Package: healthyControlsPresenceChecker
Commit: 7dc4fac8ce626ea9c40df444525c52276b72fda3
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-29 12:21:39 -0500
Commit message:

 committed changes locally
 
Package: healthyControlsPresenceChecker
Commit: 021411adcb49e0c617fdb8b952df68185897e19e
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-29 11:35:15 -0500
Commit message:

 committed changes locally
 
Package: BiocParallel
Commit: 88ea4a019c220e8a577bfd38eb5c7613749e0304
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-29 11:25:32 -0500
Commit message:

 version bump and NEWS update
 
Package: BiocParallel
Commit: 7bd837306bb2d1b172e3e67793654c9e21dd6af9
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-28 12:14:57 -0500
Commit message:

 rename bperror() to bpresult()

- document along with bpok() / bperrorTypes()
 
Package: BiocParallel
Commit: 9dc8e7df3a6bf6b61fb115dfe54c122346dc2fe9
Author: Jiefei Wang <szwjf08@gmail.com>
Date: 2021-10-22 18:18:34 +0800
Commit message:

 accept `bplist_error` as the argument of BPREDO

- add a new accessor `bperror`
- `bplapply` and  `bpvec` accept `bplist_error` as the BPREDO argument,
- update unit tests and vignette
 
Package: healthyControlsPresenceChecker
Commit: 5becfcea246bab035755dc82bff7bef438cbd2df
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-29 11:17:10 -0500
Commit message:

 committed changes locally
 
Package: PhyloProfile
Commit: 87def7172bbb9f964856841e962d4d7a5e7563de
Author: trvinh <trvinh@gmail.com>
Date: 2021-11-29 16:08:33 +0100
Commit message:

 distinguish between pfam and smart links
 
Package: rhdf5
Commit: c053f51d186504a5bb6273c33f2aeaae9939db0c
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-29 14:04:28 +0100
Commit message:

 version bump
 
Package: rhdf5
Commit: dcf8cdbd4395fed46b9a5788e2003ca2c9154c2a
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-29 10:42:34 +0100
Commit message:

 Standardise cset and encoding arguments; allow UTF8 and UTF-8
 
Package: rhdf5
Commit: 058b5a7fc52bb8062826f111b7275a7450feee7f
Author: Ilia Kats <ilia-kats@gmx.net>
Date: 2021-11-29 10:30:16 +0100
Commit message:

 update docs, fix test
 
Package: rhdf5
Commit: 843a00198916f8f66b1a02bf727051b9465f557a
Author: Ilia Kats <ilia-kats@gmx.net>
Date: 2021-11-29 09:52:55 +0100
Commit message:

 use UTF-8 instead of UTF8
 
Package: rhdf5
Commit: b24edc1e7a8a217ef678c6fd885ad5ce6ed790a6
Author: Ilia Kats <ilia-kats@gmx.net>
Date: 2021-11-24 10:26:31 +0100
Commit message:

 fix UTF8 string encoding

h5createAttribute/h5writeAttribute needed the argument to be "UTF-8" and
passed it to H5Tset_cset, which needed the argument to be "UTF8".
Therefore, setting the encoding to UTF-8 failed.
 
Package: rhdf5
Commit: d7e18974c195e33629ff22585060c35a4594ee64
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-28 18:03:14 +0100
Commit message:

 Some unit tests for H5T functions
 
Package: rhdf5
Commit: 0441b6d71d7a5b9e21ba375661c7daaa74b354ae
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-28 18:02:54 +0100
Commit message:

 Ensure UTF-8 is used consistently over UTF8
 
Package: HubPub
Commit: 3d539e1bd8926c7a72446e17f81d8ba4b4364575
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-29 06:57:16 -0500
Commit message:

 Add copy to azcopy command
 
Package: reconsi
Commit: d7facf9398ea6e0fb8bcb5d60167c057503bd8aa
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-29 10:51:41 +0100
Commit message:

 solved version conflict

Merge branch 'master' of git.bioconductor.org:packages/reconsi

# Conflicts:
#	DESCRIPTION
 
Package: reconsi
Commit: ee1c5f33ff86b39988b8aa6092508434e4e20e66
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-04 12:47:53 +0200
Commit message:

 requesting matrix package
 
Package: reconsi
Commit: 5f595cd9333a36af1d092b69b4e1ea0bd75d1214
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-04 12:08:39 +0200
Commit message:

 Modern authro fields
 
Package: reconsi
Commit: 246a4609f85dc6255c8baa91161acf849ad11793
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-04 12:03:49 +0200
Commit message:

 getCiprop working
 
Package: reconsi
Commit: 424f8c05db05dec35c3d469fe7d5302d335c884a
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2020-11-14 13:20:09 +0100
Commit message:

 A clearer image
 
Package: reconsi
Commit: deddbf077507c391edc0479a0ee99835e30c6bf9
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2020-11-14 13:18:09 +0100
Commit message:

 With up-to-date vignette
 
Package: reconsi
Commit: 162e2ab08b74d1a5a72871454c8ff4c9e3c43806
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-08-28 15:30:42 +0200
Commit message:

 Update description and news file 1.1.4
 
Package: reconsi
Commit: 8159a26bb237e9e4ea4d86896bf807662540bfec
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-08-28 15:23:45 +0200
Commit message:

 Some explanation
 
Package: reconsi
Commit: e5d9f95438af592d83642f56fe9286753516d42d
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-08-28 15:20:00 +0200
Commit message:

 Start from standard normal null
 
Package: reconsi
Commit: 67e90640286f28ab65f7afed5d81c6571fbeab49
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-08-28 15:03:49 +0200
Commit message:

 Plot full range of test statistics in plotNull
 
Package: reconsi
Commit: 9459f8f165281b76f55dea278bdb1e61c0026c93
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-06-04 17:23:08 +0200
Commit message:

 With prepvec
 
Package: reconsi
Commit: ea2234b8342be4a1549d4f233827618aebfbc9a2
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-06-04 17:16:17 +0200
Commit message:

 Faster mixturer calculation
 
Package: reconsi
Commit: 7650f8dee24a69c237f912acadd4dd552bc68905
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 18:07:59 +0200
Commit message:

 New wilcox works
 
Package: reconsi
Commit: beec57ca0d6982802a5118180566fd1ec8353974
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 17:43:06 +0200
Commit message:

 Correct qwilcox
 
Package: reconsi
Commit: e75bdb4aafb19c697cf4ed273c90a7314add082c
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 14:36:26 +0200
Commit message:

 Correcter pwilcox
 
Package: reconsi
Commit: a274696761afb6fe9668a6e38405e58733fd01fc
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 13:57:12 +0200
Commit message:

 Fix plotnUll
 
Package: reconsi
Commit: 21a31d4f4bf2511fd33e8de57bb8d861f7ad2784
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 12:26:43 +0200
Commit message:

 Debugged plotNull
 
Package: reconsi
Commit: 09b0ad9a5c7febc40e419eb6882856378c9057ad
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 10:58:13 +0200
Commit message:

 Mistake in Fdr
 
Package: reconsi
Commit: 9d9fdb274b90ee0d7a967d5351987bc077a312d9
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-28 10:27:14 +0200
Commit message:

 Switch to ks
 
Package: reconsi
Commit: b9166b35bd6208e70f2e8cf1a0f4d458b9eccbf7
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 21:34:03 +0200
Commit message:

 full np works
 
Package: reconsi
Commit: 1449edcc1c56c7574343a64e8cb33a461b734412
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 20:52:27 +0200
Commit message:

 Update news and description
 
Package: reconsi
Commit: 4b079fd85f02516cd4e1970c791d33188879ee92
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 20:51:01 +0200
Commit message:

 Manparge for newly nadme fun
 
Package: reconsi
Commit: 25d56e07130b89919fd3265a485edddd3a619c73
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 20:49:36 +0200
Commit message:

 pRep helper function
 
Package: reconsi
Commit: 7853e01e7af2b9e2fc6217cfaf8d18df335d7954
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 20:46:26 +0200
Commit message:

 Faster impl
 
Package: reconsi
Commit: 45aafd39ad58b7d814992694344e832c3d9a9cd8
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 15:27:30 +0200
Commit message:

 Full docu
 
Package: reconsi
Commit: 017cddb50e56b47353fef786de6ed0a9a228ad89
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 15:22:39 +0200
Commit message:

 Documenting
 
Package: reconsi
Commit: 04ef87009d92de8611da5852e75d944e90d4c3f6
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 15:19:03 +0200
Commit message:

 Normalize weights
 
Package: reconsi
Commit: 81f0f009aa87594c3bbc4c425207a99291f2a684
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 14:54:02 +0200
Commit message:

 Choice for assumenormal
 
Package: reconsi
Commit: 9bb0a5eafbc7228dbb8ac690e75073f4e88e14cd
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 12:20:39 +0200
Commit message:

 wkde density
 
Package: reconsi
Commit: cd974c2eefe635b034e3977350e9803822b36163
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-27 11:58:23 +0200
Commit message:

 Small changes
 
Package: reconsi
Commit: efd7f643619edbd461080444eba4dcf3526be933
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-26 14:54:10 +0200
Commit message:

 Provide evalVal
 
Package: reconsi
Commit: b66cd6db6556328b465ea503bf908fa10d6a7c24
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-26 11:35:35 +0200
Commit message:

 Tryout
 
Package: reconsi
Commit: 2d7f6751cee139e8297b09ed88d47aa51459e3f4
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-21 21:28:11 +0200
Commit message:

 Back to centering
 
Package: reconsi
Commit: 41541e3c26e613f1b48138b8e9b64e93530be159
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-19 18:38:18 +0200
Commit message:

 No resamDesign if p-values given
 
Package: reconsi
Commit: 9ced085b53b8a166d4d7b3b1ccb1d62f7ca18eb1
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-05-19 16:25:32 +0200
Commit message:

 Tests
 
Package: APAlyzer
Commit: 26eb95537902852bee1f6685bce8981d5baca097
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 14:39:10 -0500
Commit message:

 added the doc of SeqType
 
Package: NanoporeRNASeq
Commit: 66d630ab709f9ebdf012938c6c90b95e39bc280a
Author: Chen Ying <chen_ying@gis.a-star.edu.sg>
Date: 2021-11-28 20:57:34 +0800
Commit message:

 update development version number
 
Package: NanoporeRNASeq
Commit: 3b83002baa08c582a18cbcb7d29a3443e364e459
Author: Chen Ying <chen_ying@gis.a-star.edu.sg>
Date: 2021-11-28 20:55:54 +0800
Commit message:

 bug fix: model not found error in line 64
 
Package: APAlyzer
Commit: 2107de564096ef13d74ab6d70d507bb9b6880af4
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 04:10:23 -0500
Commit message:

 updated vignettes
 
Package: APAlyzer
Commit: 59e4871aa010cbbc85d25c66b8853a9bfc9177bf
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 04:08:36 -0500
Commit message:

 bump the version into 1.9.1
 
Package: APAlyzer
Commit: 7a2f2308a74c4f22a67edd2738ae0e2bd967d1d7
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 04:06:13 -0500
Commit message:

 bump the version into 2.1.1
 
Package: APAlyzer
Commit: 445d5d1438fb8eea23751ae8cd77281005dc256f
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 04:03:11 -0500
Commit message:

 Bump the version into 2.0.1
 
Package: APAlyzer
Commit: e1ad16e6a9862f3af2522df07e0b646047b946eb
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 04:01:40 -0500
Commit message:

 Merge remote-tracking branch 'upstream/master'
 
Package: APAlyzer
Commit: eecd6c3c5d61c92bb7dace7c19d6a33fa52afd29
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 02:58:20 -0500
Commit message:

 Update README.md
 
Package: APAlyzer
Commit: 59918243fc7b86d5db37c186e3f6005248a87e17
Author: Ruijia Wang <51307984+RJWANGbioinfo@users.noreply.github.com>
Date: 2021-11-28 02:55:08 -0500
Commit message:

 Updated to v2.0.1
 
Package: rawrr
Commit: b93311ecbc1869403ff12b477a349faf28cb3495
Author: Christian Panse <cp@fgcz.ethz.ch>
Date: 2021-11-28 09:59:08 +0100
Commit message:

 Fix title in rawrr bib entry
 
Package: rawrr
Commit: 3f51e0ce78f2216287de1c5a607ef3f52e8217ff
Author: Christian Panse <cp@fgcz.ethz.ch>
Date: 2021-11-28 09:53:02 +0100
Commit message:

 Add mono information in vignette file

```
mono --version
```

and add include and lib path information using the
`pkg-config` tool on the build system.
 
Package: comapr
Commit: 732a1a8f7e3bf3c64ea534b42f49a2ccd86c47fd
Author: ruqianl <xiaoru.best@gmail.com>
Date: 2021-11-28 00:43:34 +0000
Commit message:

 v0.35 bpDist new filteringmethod
 
Package: simplifyEnrichment
Commit: bac35ddfb95dd95f6de3a59fd68639018e1715e6
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-27 21:19:09 +0100
Commit message:

 merge
 
Package: simplifyEnrichment
Commit: 0415ea56cadc824469666bf3edc3ce08699306e0
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-26 16:54:04 +0100
Commit message:

 improve anno_word_cloud()
 
Package: simplifyEnrichment
Commit: fce9e92924721a76d0f418acc4d64deec0e5a657
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-22 14:22:22 +0100
Commit message:

 regenerate website
 
Package: simplifyEnrichment
Commit: b1463d6d784cb1d1d25efa6e69e650b8fd5e2ce4
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-19 19:07:43 +0100
Commit message:

 paper revision
 
Package: simplifyEnrichment
Commit: 1527ee89986cf697fccc8bf2c6f1315a0ab91baf
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-15 13:26:04 +0100
Commit message:

 adjust default clustering methods
 
Package: simplifyEnrichment
Commit: a30fcce06661450bc0078f412e77de323d9a412e
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-11-13 22:02:09 +0100
Commit message:

 paper revision
 
Package: simplifyEnrichment
Commit: f06f71f59ad8f5969137137d470d091341018228
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-10-08 13:31:13 +0200
Commit message:

 adjust the matrix
 
Package: simplifyEnrichment
Commit: b0aecf19f56d42d33ba6d2204cee075ab2b48603
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-08-24 13:27:29 +0200
Commit message:

 Merge branch 'master' of github.com:jokergoo/simplifyEnrichment
 
Package: simplifyEnrichment
Commit: 8150f0ad233776b7e7ccef78408d5cd33fbb9dd1
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-08-24 13:27:25 +0200
Commit message:

 add simplifyPathway()
 
Package: simplifyEnrichment
Commit: 41f41235d3ede051aad2d6660d6dd14b5bc32278
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-08-24 12:55:17 +0200
Commit message:

 Merge pull request #57 from krassowski/customisable-count_words

Allow users to customize the count_words behaviour 
Package: simplifyEnrichment
Commit: 655f6a03215545394a9594b182369b527b1bd95c
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-14 20:58:52 +0200
Commit message:

 add gridtext to Suggests
 
Package: simplifyEnrichment
Commit: ebb976557835e9b1a06c01cbac1ffed3ff4a99ba
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-14 18:21:17 +0200
Commit message:

 add genefilter to Suggests
 
Package: simplifyEnrichment
Commit: 7f2a5ed85ac091c027bd8bc3f591474c6da1c083
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-03 19:17:03 +0200
Commit message:

 update actions
 
Package: simplifyEnrichment
Commit: 214d025e0057275437fbb6297ca67e2d56b3e977
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 19:24:56 +0200
Commit message:

 Update R-CMD-check.yaml 
Package: simplifyEnrichment
Commit: c7c35a8c04084a4575043b9dceace24dad84691f
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 19:16:06 +0200
Commit message:

 update
 
Package: simplifyEnrichment
Commit: c5678dd70ff812733643d9c53e4269ccba853726
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 15:52:42 +0200
Commit message:

 update actions
 
Package: simplifyEnrichment
Commit: 2e23e1b5477176111cb7708a5f25b0825976cc05
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 15:08:39 +0200
Commit message:

 update actions
 
Package: simplifyEnrichment
Commit: 6f80c3fee8a930a95472c28ce9ee45af1516cdb0
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 15:05:30 +0200
Commit message:

 update actions
 
Package: simplifyEnrichment
Commit: 3db7c7ffdebb768da33ede9617d7d366d20e4a45
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 14:39:38 +0200
Commit message:

 Update R-CMD-check.yaml 
Package: simplifyEnrichment
Commit: 25bd91448c4cb9cf6d3b3ba06bf13a4647ba1f08
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-02 13:59:51 +0200
Commit message:

 Update R-CMD-check.yaml 
Package: simplifyEnrichment
Commit: f68bf015942fc5874ad2afe77fba719a319ee20f
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-01 21:32:21 +0200
Commit message:

 Update R-CMD-check.yaml 
Package: simplifyEnrichment
Commit: 46cd318d2de79439f920c915a644f8d1afcad7f4
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-01 18:55:10 +0200
Commit message:

 Merge branch 'master' of github.com:jokergoo/simplifyEnrichment
 
Package: simplifyEnrichment
Commit: ac449e6f08083c6d0b1dda3036798d0262ab956e
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-01 18:55:00 +0200
Commit message:

 adjust vignette title
 
Package: simplifyEnrichment
Commit: 5132f86589a7439d2ad1a1c47c09172135101eb5
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-01 16:03:51 +0200
Commit message:

 Update R-CMD-check.yaml 
Package: simplifyEnrichment
Commit: db13e6581cab18a5d6f9281cf76ca6d81fb71d1a
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2021-07-01 15:29:49 +0200
Commit message:

 use github action
 
Package: simplifyEnrichment
Commit: 93cab6f4a4472f839de1c85463e92002548ee21d
Author: krassowski <krassowski.michal@gmail.com>
Date: 2021-06-05 23:40:34 +0100
Commit message:

 Use VCorpus as SimpleCorpus does not allow for custom tokenizers

The previously used Corpus was creating a SimpleCorpus which takes
various shortcuts to boost performance (i.e. is missing functions and
does not complain if provided options that it does not support);
both SimpleCorpus and VCorpus are in-memory corpora
 
Package: simplifyEnrichment
Commit: 0ace0d03ad0b638e04bfc14048f96db5108d1866
Author: krassowski <krassowski.michal@gmail.com>
Date: 2021-06-05 15:08:11 +0100
Commit message:

 Allow users to customize the count_words behaviour
 
Package: limma
Commit: 7764df771ace85887a9a7d6ff9a8aee5f58981cc
Author: Gordon Smyth <smyth@wehi.edu.au>
Date: 2021-11-27 08:55:53 +1100
Commit message:

 limma 3.51.1

- Improve checking for incorrectly specified `contrasts` argument in
  contrasts.fit().

- Rerun case study in Section 17.4 of the User's Guide
  (time-course experiment with Agilent rat microarrays)
 
Package: DExMA
Commit: 654dbef2f97287a4c4faad2f7dad3227ad4db2b2
Author: Juananvg <juanantoniovillatorogarcia@gmail.com>
Date: 2021-11-26 19:06:34 +0100
Commit message:

 Missing genes imputation KNN method added
 
Package: msdata
Commit: 545b0ec5445888a62d90c4e5b88785179b75c734
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-26 18:05:08 +0100
Commit message:

 Actually remove the mzdata files
 
Package: healthyControlsPresenceChecker
Commit: dfd7b037192f5b74c3af92a49bfa8a2ca706192d
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-26 09:31:28 -0500
Commit message:

 committed changes locally
 
Package: healthyControlsPresenceChecker
Commit: 7a92b13f5924411397cd4d97d460eaea197b1199
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-26 09:02:04 -0500
Commit message:

 committed changes locally
 
Package: metaseqR2
Commit: e49a25c33cb8096d39db1a06df24c6bf9b261277
Author: Panagiotis Moulos <panos@sevenofnine.fleming.local>
Date: 2021-11-26 13:45:40 +0200
Commit message:

 Fixed problem with outliers in highcharts boxplots and track names in report
 
Package: epimutacions
Commit: a34443c63d1af6ac7365804b3436eb12c4ce9475
Author: LeireAbarrategui <60744058+LeireAbarrategui@users.noreply.github.com>
Date: 2021-11-26 13:05:16 +0000
Commit message:

 Delete epimutacions.Rproj 
Package: epimutacions
Commit: b3f5bec438bf9c7440df85fa14f09da4ee2d58bb
Author: Leire Abarrategui Martinez <60744058+LeireAbarrategui@users.noreply.github.com>
Date: 2021-11-26 12:53:34 +0000
Commit message:

 .
 
Package: epimutacions
Commit: 00372cfcc0a8924a8e1eab284a6640dddbdaa4f3
Author: LeireAbarrategui <60744058+LeireAbarrategui@users.noreply.github.com>
Date: 2021-11-26 11:53:05 +0000
Commit message:

 Update DESCRIPTION 
Package: epimutacions
Commit: f0d8c2bc82564c7b12c424c7cd3da35058139038
Author: LeireAbarrategui <60744058+LeireAbarrategui@users.noreply.github.com>
Date: 2021-11-26 11:45:49 +0000
Commit message:

 Update README.md 
Package: OGRE
Commit: 36b9c1ae7df7ab073a0499832583bfe99acdeb7c
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-26 12:43:45 +0100
Commit message:

 version bump
 
Package: OGRE
Commit: 7080fe39ffe2cfefc6911da24e544268f5f00ef6
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-26 12:36:44 +0100
Commit message:

 typo
 
Package: OGRE
Commit: 5a89d8e989d1e6c9481a23af33aa655933cf6192
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-26 12:30:53 +0100
Commit message:

 vignette edit cause it did not build on some systems
 
Package: RCM
Commit: fb5a52e72763b4d6ea4022032d7be3cddb7bcfc4
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-26 09:22:15 +0100
Commit message:

 With legal version bump
 
Package: RCM
Commit: c0ac82aef25353a6757cec67edb2882819c4cabd
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-26 09:21:27 +0100
Commit message:

 Solved conflicts
 
Package: RCM
Commit: 82d300d3f7a45b92a4f860c1e231d25af47be995
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-26 09:10:28 +0100
Commit message:

 version bump
 
Package: RCM
Commit: ad555f479b28d54f3110d2e0f08d4303db91f6b1
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-26 17:08:30 +0200
Commit message:

 Updated readme
 
Package: RCM
Commit: 7c096823ba8c5ee0867c7541f6b66dd24ecbf225
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-26 17:03:04 +0200
Commit message:

 Tests run without error now
 
Package: RCM
Commit: b1d8f399c4610821a6c31d7fcd680e35ecd87dcd
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-26 16:28:54 +0200
Commit message:

 New version, tests for plots of data with missing values
 
Package: RCM
Commit: 892bf9345e00850ed3043c81897f3bfdbf6e57e8
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-13 10:10:57 +0200
Commit message:

 Update news file
 
Package: RCM
Commit: 89855d6c67994cd0cca07c43ae39ad6174f2c89a
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-10-13 10:03:00 +0200
Commit message:

 Reorganize vignette
 
Package: RCM
Commit: fc66739ee04c02151df0bff9520976f2b949d0bb
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-07-07 15:14:39 +0200
Commit message:

 Add dependence on DBI
 
Package: RCM
Commit: 6938cf624d5b483332efc425947fff9c98398be8
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-07-06 17:45:25 +0200
Commit message:

 Weird dbi error remains
 
Package: RCM
Commit: bc41275775b6f8240f6816e9cbf4e5df76994178
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-07-06 17:20:46 +0200
Commit message:

 Dependence on dbi added
 
Package: RCM
Commit: e763b1950d0e1efaf60c33e397ad3ffb45b5f6ac
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-07-06 16:54:31 +0200
Commit message:

 ebuilding reamde
 
Package: RCM
Commit: f36e4d7c471ae6f766192e768fd994f5aeb2a186
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-05-31 13:21:27 +0200
Commit message:

 Fixed residualplot and added tests
 
Package: RCM
Commit: 80700a2c7986d1a3282bb621dd0c28743e114e21
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-15 15:02:06 +0100
Commit message:

 Warning and explanation when few categorical, constraining variables
 
Package: RCM
Commit: 276f45ceec0544f13fed3274d8bae047c6bcad5a
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-06 13:11:04 +0100
Commit message:

 New roxygen version
 
Package: Pi
Commit: acd7502b205ddd8e0c0d23cd4fea1f223c127e74
Author: fh12355 <hfang@hfang.local>
Date: 2021-11-26 11:40:03 +0800
Commit message:

 Update to the version 2.7.2
 
Package: comapr
Commit: 6722cbd7c95508b60b440328c7d2f590c0e7bab3
Author: ruqianl <xiaoru.best@gmail.com>
Date: 2021-11-16 03:32:37 +0000
Commit message:

 bumping version
 
Package: comapr
Commit: dca2d84372f194316c10b0d71e56197bce3d705f
Author: ruqianl <xiaoru.best@gmail.com>
Date: 2021-11-16 03:31:48 +0000
Commit message:

 fix bug in chr level in qc function to be
 
Package: rhdf5
Commit: 87623b2b2ef040c9550ee26ff3a4e53d8b9af0e4
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-25 22:31:39 +0100
Commit message:

 Update Github Workflow

 
Package: rhdf5
Commit: 9a680172ba57534239e9aca0e936651199f5c814
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 23:08:10 +0100
Commit message:

 Update workflow to Bioc 3.15
 
Package: rhdf5
Commit: 011c616eec11580041f06007fa24d966c0c9d0f3
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 23:07:16 +0100
Commit message:

 Update workflow to Bioc 3.15
 
Package: rhdf5
Commit: 77857d592c8cfeda197ac7383a0ffd121c93ce2d
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 22:57:29 +0100
Commit message:

 Additional method documentation
 
Package: rhdf5
Commit: b39544ed2f00f8389a2f17965041763bcded4cea
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 19:03:21 +0100
Commit message:

 Unit tests for H5Ref methods
 
Package: rhdf5
Commit: 6195d10dca62f398feff94175f6c4b20964a68e8
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 19:03:00 +0100
Commit message:

 Add error handling to methods
 
Package: rhdf5
Commit: dc43c6279e99e45d04f9920d0804400dce8ab5a0
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 19:02:36 +0100
Commit message:

 Document H5Ref methods
 
Package: rhdf5
Commit: eb0df8a0cfb5d6ff1fd9fb6ba952e96a35b01866
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 13:16:14 +0100
Commit message:

 Remove -Wall C flag
 
Package: rhdf5
Commit: 11efadfb46e96601204a06da76d11402108448f0
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 13:06:45 +0100
Commit message:

 Version bump
 
Package: rhdf5
Commit: 91c43a731d8df4ac31cc87ce714b9b2e6319fe05
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 13:06:12 +0100
Commit message:

 Update NEWS
 
Package: rhdf5
Commit: 2bfaf73101c16d3f435bb9d401312da05487ed9a
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-20 13:06:01 +0100
Commit message:

 Tests for H5R error handling
 
Package: rhdf5
Commit: bfb66cbc01b462b4933cad349c97203c2960dace
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-18 16:23:58 +0100
Commit message:

 H5R unit tests
 
Package: rhdf5
Commit: f5c5371ef290975ae9f172b03e765c6b5a78dd83
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-17 09:45:15 +0100
Commit message:

 Add H5R manual pages
 
Package: rhdf5
Commit: 35db635b912029ef204adfacb97445804b4d4342
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-16 16:48:44 +0100
Commit message:

 Supress output from h5createGroup()
 
Package: rhdf5
Commit: ce09c9a84ef800ff6e5f711f477316ee89f038cf
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-15 09:55:03 +0100
Commit message:

 Reading references from attributes
 
Package: rhdf5
Commit: f0af35954af28552024bd4bb31a9a56b5493ead6
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-15 09:54:33 +0100
Commit message:

 Remove some print statements
 
Package: rhdf5
Commit: 7878273770092e465030c1d1e6350734196fd493
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-14 08:38:50 +0100
Commit message:

 Progress on references in attributes
 
Package: rhdf5
Commit: d8420f50c437d49b5eefc7dfef731a6343f02d35
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-12 10:46:57 +0100
Commit message:

 Subsetting H5Ref class
 
Package: rhdf5
Commit: 2c5a39b82c19eb071580fe0a97dd703f186a623b
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-12 10:46:36 +0100
Commit message:

 Reading reference datasets
 
Package: rhdf5
Commit: 418812eb329b780dac82feaf9ef8d659c7077d5a
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-11 11:51:48 +0100
Commit message:

 writing working fairly well
 
Package: rhdf5
Commit: c3bd0e64e6e269aa2495ff51e7928db5f532b1d3
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-10 16:51:39 +0100
Commit message:

 Get dataset references working
 
Package: rhdf5
Commit: 79334a3ff010bf013440bba43f48a3725618c0eb
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-09 22:38:26 +0100
Commit message:

 Add H5R_get_name
 
Package: rhdf5
Commit: 010247fa1a3e7d1ca351e22ad7e7f67e02c3aeb1
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-09 12:16:38 +0100
Commit message:

 Prototypes for H5Rget_obj_type and H5Rdereference
 
Package: rhdf5
Commit: 8eac42f269b224e64158355067779cee3731305a
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-08 20:49:18 +0100
Commit message:

 Initial commit for writing object ref datasets
 
Package: rhdf5
Commit: 359c8a3e5b383aaa7e98811aded6984695ef2007
Author: Mike Smith <grimbough@gmail.com>
Date: 2021-11-08 10:33:48 +0100
Commit message:

 Merge remote-tracking branch 'tmp/attribute-references' into object-references
 
Package: rhdf5
Commit: d045d455336ffeb0343302b437388e2dbe06f33b
Author: Ilia Kats <ilia-kats@gmx.net>
Date: 2021-09-06 16:05:38 +0200
Commit message:

 implement reading/writing HDF5 object references in attribute

h5writeAttribute(object_to_reference, object, attribute_name) will write
a reference to object_to_reference into attribute_name of object.
Similarly, if attr is an attribute containing an object reference,
H5Aread(attr) will return an H5IdComponent of the referenced object.
 
Package: sciCNV
Commit: 8fab7adda046dd8e7ca54a562f1be0b85df2341d
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-25 15:14:57 -0500
Commit message:

 modifying vignettes (12)
 
Package: sciCNV
Commit: e82b625232a9430a700d5a7e25561c7ecd14bdd7
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-25 14:52:03 -0500
Commit message:

 modifying vignettes (11)
 
Package: combi
Commit: 4489378ae23e616515f8822d63383aef6f4e4554
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 19:19:28 +0100
Commit message:

 other version bump
 
Package: combi
Commit: e4471d5a204cc837cd7eddb9e89a89d4ebbc53a9
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 19:18:38 +0100
Commit message:

 Fixed conflict
 
Package: combi
Commit: 3f225b4aadf8b6d0b0cf343d8a7ebd2575a42ace
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 19:13:27 +0100
Commit message:

 with dontrunrather than donttest
 
Package: combi
Commit: 87ed7b12e6e174a06311d86ebf0d68eb4c083de4
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 17:19:04 +0100
Commit message:

 R 4.0
 
Package: combi
Commit: ea5b2a78905325b518529d2dd7ac983ff5db90a0
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 17:18:55 +0100
Commit message:

 Dependencies, and no record
 
Package: combi
Commit: 85edd350e3a51f890535ae550287ac685a6e33da
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-11-25 16:49:11 +0100
Commit message:

 initPower parameter, and FAQ on samples on top of each other
 
Package: combi
Commit: 67a34d3414e5a1518b0b2391db57d8c79b3fdc81
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-14 16:38:10 +0100
Commit message:

 With warning for data mixup compositional-gaussian
 
Package: combi
Commit: e65e46e07c35c7ad482251ccd625300c6ff2062f
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-12 18:12:38 +0100
Commit message:

 Bug fix missing values gaussian
 
Package: combi
Commit: 04bb561a251e4a9201cbb0a8da518c1e5ef5a0bb
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-05 15:09:42 +0100
Commit message:

 Update docu
 
Package: combi
Commit: becf147f952505f2f048ccfc3fee0029976277bd
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-05 15:00:26 +0100
Commit message:

 New roxygen version
 
Package: combi
Commit: a3bc4098ed534a8dd1ce0e15e2dd48754e8d0557
Author: Stijn HAWINKEL <sthaw@psb.ugent.be>
Date: 2021-02-05 13:12:44 +0100
Commit message:

 Unknown changes
 
Package: combi
Commit: 612d1eeebbaf22184fb8d4d38ad0bc26a5a7d144
Author: shawinke <stijn.hawinkel@ugent.be>
Date: 2020-04-09 10:55:24 +0200
Commit message:

 Star shaped features
 
Package: SynExtend
Commit: a42ba2d3b99dc49d361b72b6db3c95221ff71e29
Author: npcooley <npcooley@gmail.com>
Date: 2021-11-25 11:45:31 -0500
Commit message:

 PairSummaries adjustment
 
Package: HPAStainR
Commit: 8b207dd54c97c7e965a01280168735e016622c3a
Author: Tim Nieuwenhuis <tnieuwe1@jhmi.edu>
Date: 2021-11-25 10:06:06 -0500
Commit message:

 devel bug fix
 
Package: HPAStainR
Commit: 1bac7d47ed9d661bbef24fede76f43e560b40086
Author: Tim Nieuwenhuis <tnieuwe1@jhmi.edu>
Date: 2021-11-25 09:56:16 -0500
Commit message:

 bug fix: handling issue due to new data type in HPA, will adapt on devel branch
 
Package: cbpManager
Commit: ffae0dc2a1dc52548cae989d0b3dcb908428e892
Author: Ustjanzew <austjanz@Uni-Mainz.De>
Date: 2021-11-25 11:25:00 +0100
Commit message:

 merged with upstream/master and resolved conflicts
 
Package: cbpManager
Commit: 9fc383ebdd1bbafad6344a0c4d14b9925c918b68
Author: Ustjanzew <austjanz@Uni-Mainz.De>
Date: 2021-11-25 11:22:30 +0100
Commit message:

 version bump
 
Package: cbpManager
Commit: aeac133c582bd8bd1ce9a4afe147360f294df7ff
Author: arsenij-ust <61419866+arsenij-ust@users.noreply.github.com>
Date: 2021-11-10 21:32:10 +0100
Commit message:

 Update LICENSE.md 
Package: cbpManager
Commit: 8bf0d12c19cd7385d537753c336564e45fe30245
Author: Ustjanzew <austjanz@Uni-Mainz.De>
Date: 2021-11-02 11:33:43 +0100
Commit message:

 fix version view
 
Package: OGRE
Commit: c6ba03ba2d2c26f33ebc5f25cabe49ae0a0ffc40
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-25 09:46:02 +0100
Commit message:

 Added watch tags
 
Package: GenProSeq
Commit: 7c0cf2518a357cdf853ea505b9d4747ff3690136
Author: dongminjung <dongminjung@Dongmins-MacBook-Pro.local>
Date: 2021-11-25 10:30:49 +0900
Commit message:

 update
 
Package: GenProSeq
Commit: 9693de32effe0c4863fa8030ed68981a94fb186f
Author: dongminjung <dongminjung@Dongmins-MacBook-Pro.local>
Date: 2021-11-25 09:52:24 +0900
Commit message:

 update
 
Package: GUIDEseq
Commit: 56ed256ac618f67d856616421a43461a551d0ca0
Author: Julie Zhu <juliezhu@macbook-pro.fios-router.home>
Date: 2021-11-24 19:35:34 -0500
Commit message:

 fixed the issue with unequal length of last and first
 
Package: GUIDEseq
Commit: 7847ecaca4644a73abe0031b0e4f10ca9e3e47a5
Author: Julie Zhu <juliezhu@macbook-pro.fios-router.home>
Date: 2021-11-24 15:47:40 -0500
Commit message:

 Merge branch 'master' of git.bioconductor.org:packages/GUIDEseq
 
Package: GUIDEseq
Commit: 63cb41309696cc6ec2f792828a34dfbfab2bab71
Author: Julie Zhu <juliezhu@macbook-pro.fios-router.home>
Date: 2021-11-03 22:29:36 -0400
Commit message:

 update documentation
 
Package: miRLAB
Commit: 83fdf5ca1f1502e86d1b7449eb2b8c0cf9566cb6
Author: pvvhoang <pvvhoang@gmail.com>
Date: 2021-11-25 10:14:25 +1030
Commit message:

 Update maintainer
 
Package: GenProSeq
Commit: 786617b2bfc38ce90b01c4c24661bedb1f184e39
Author: dongminjung <dongminjung@Dongmins-MacBook-Pro.local>
Date: 2021-11-25 08:25:19 +0900
Commit message:

 update
 
Package: systemPipeR
Commit: 6cf8b80e23de5ebed5affa871b57ccec10b56e53
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-23 11:53:55 -0800
Commit message:

 runCommandline cleaning
 
Package: systemPipeR
Commit: 0447db624e7b1a7d5a3238c52a1d22b1f2f9bfdf
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-23 11:37:55 -0800
Commit message:

 Checking results PATH: sal == yamlinput(args.run); build_check
 
Package: systemPipeR
Commit: 38371e2f5df073108440cdbcdea26ff6d7d359b9
Author: Dani Cassol <danicassol@gmail.com>
Date: 2021-11-23 10:28:03 -0800
Commit message:

 build_check 
Package: systemPipeR
Commit: 1280ec82fa1fab6df4aab975589b08371f6ffde4
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-22 17:56:58 -0800
Commit message:

 versionUp; build_check
 
Package: systemPipeR
Commit: 5f3fb14257bd4f2cc8f940a6f7576398c1f728e2
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-22 17:55:03 -0800
Commit message:

 minor updates runWF fct
 
Package: systemPipeR
Commit: 24cfd10b1ca98b32652c936926926853d042e5a2
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-22 17:54:08 -0800
Commit message:

 warning option on the plot
 
Package: systemPipeR
Commit: 0ba4b2c9367db100438e0489b0f2d015924604a0
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-22 11:19:54 -0800
Commit message:

 clusterRun
 
Package: systemPipeR
Commit: 0e06f7868a6209a231d123a7576fd9de08247f23
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-18 22:34:10 +0000
Commit message:

 Bot update cwl description files
 
Package: systemPipeR
Commit: 0bf6d71fab70f62e17d7cb68cb27d6e3eb7517ef
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-16 09:47:18 -0800
Commit message:

 build_check; Improved running time when targets subset
 
Package: systemPipeR
Commit: 84619f5c8d7a817c08d536d6b13234603fcc1505
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-16 09:39:03 -0800
Commit message:

 build_check; versionUP
 
Package: systemPipeR
Commit: c89a67f427de9b234db3357629022387fcc17565
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-16 09:35:04 -0800
Commit message:

 build_check; versionUP
 
Package: systemPipeR
Commit: fe76762910dc6463b3959d46c9f36b96c2187cd9
Author: dcassol <danicassol@gmail.com>
Date: 2021-11-15 10:20:45 -0800
Commit message:

 internal runWF
 
Package: prozor
Commit: 5a830e2e0901c078b4153ec491ef8fc53f86bf62
Author: Witold Wolski <wewolski@gmail.com>
Date: 2021-11-24 19:43:16 +0100
Commit message:

 only one e-mail associated
 
Package: prozor
Commit: 281f1d225257808527ed6aee4c253392b2d465c0
Author: Witold Wolski <wewolski@gmail.com>
Date: 2021-11-24 19:31:17 +0100
Commit message:

 doc
 
Package: prozor
Commit: 72c4596f0b3a937752dc344595b2c5623763f540
Author: Witold Wolski <wewolski@gmail.com>
Date: 2021-11-24 19:24:23 +0100
Commit message:

 fix collate error caused by removing fgcz_helper file
 
Package: prozor
Commit: 1d111aba653fbb7d9bcfc0e2ac2d9fe0c76b5903
Author: Witold Wolski <wewolski@gmail.com>
Date: 2021-11-24 19:15:31 +0100
Commit message:

 removing ssh dependencies
 
Package: BiocParallel
Commit: 376348c3ab7cd194fffdab2665e8662d623d4589
Author: Martin Morgan <Martin.Morgan@RoswellPark.org>
Date: 2021-11-24 13:08:38 -0500
Commit message:

 version bump and NEWS update
 
Package: BiocParallel
Commit: ff4fc2da4d4aebd2671bc64bb9fef8488f82d46c
Author: Jiefei-Wang <szwjf08@gmail.com>
Date: 2021-11-24 11:18:27 -0500
Commit message:

 fix regression in progress bar display with bplapply()

- closes #172
- closes #173
 
Package: BiocParallel
Commit: 12f7fab10135f14d371a2bf8c409b7692dd63021
Author: Jiefei-Wang <szwjf08@gmail.com>
Date: 2021-11-23 12:04:13 -0500
Commit message:

 do not output empty line with sink()

- improves 27f704689ef2601fdf4efd4f06e3bef616e8582a
- closes #171
 
Package: HubPub
Commit: 491dedf302b9fe2720818f462b5dc3eaf7d7a23e
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 13:06:41 -0500
Commit message:

 Merge branch 'master' of git.bioconductor.org:packages/HubPub
 
Package: HubPub
Commit: 3b81b872bc56f32c48f9b85edfc694a09bc06203
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 13:06:07 -0500
Commit message:

 Update CreateAHubPackage vignette to upload to Azure instead of AWS
 
Package: HubPub
Commit: e83758371f16242ee3b6941d307be32890413468
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 13:56:44 -0500
Commit message:

 Add screenshots and update instructions
 
Package: HubPub
Commit: 199bb0c2cc9e1a1f2dbdacc42c11cee3617bd482
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 13:01:23 -0500
Commit message:

 Add screenshot place holders and update instructions for using R of local copy
upload
 
Package: HubPub
Commit: fe086fcae8253f0fb53822ab5d3acbec407479cd
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 12:19:12 -0500
Commit message:

 Minor updates
 
Package: HubPub
Commit: 2a172b6ba33271d23036123c159c6197d4d4ff99
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 10:55:20 -0500
Commit message:

 Renumber
 
Package: HubPub
Commit: 14ddf1d0cc3d5a56b20e239f46167ceffba93a91
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 08:57:33 -0500
Commit message:

 Minor updates and work on GUI Azure section
 
Package: HubPub
Commit: fbbb03ef6735ab5f27024151e347b39031ab0bde
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-23 08:18:22 -0500
Commit message:

 Azure updates to vignette

  - command line option
  - R interface partially complete
  - shell of GUI
 
Package: ExperimentHubData
Commit: c808eb286dc3ee34693cb595e93bafbe30599971
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 13:01:28 -0500
Commit message:

 Version bump for changing makeMetadata to use Azure instead of AWS
 
Package: ExperimentHubData
Commit: a4c7787ce63458cb9ffce722daeb3f2541154255
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 12:58:47 -0500
Commit message:

 Update http://s3.amazonaws.com/experimenthub to
https://bioconductorhubs.blob.core.windows.net/experimenthub/
 
Package: AnnotationHubData
Commit: 658ab6c3305bb9313adcca9ee915cf9f7a0032a1
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 12:55:50 -0500
Commit message:

 update NEWS
 
Package: AnnotationHubData
Commit: 77830bc041036e34514fb65d3703ecf1a9c956a1
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 12:41:56 -0500
Commit message:

 Version bump for AWS to Azure switch in makeMetadata function
 
Package: AnnotationHubData
Commit: ad9382d585342f57ffdf03ee78fff73ad04443a9
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2021-11-24 12:37:58 -0500
Commit message:

 Update http://s3.amazonaws.com/annotationhub to https://bioconductorhubs.blob.core.windows.net/annotationhub/
 
Package: OGRE
Commit: 45e68a52acce0aec119555c188fad90e619350a0
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-24 18:32:13 +0100
Commit message:

 edit description, email
 
Package: OGRE
Commit: d5b91303835469a31dec1f6c39e4683f470d996b
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-24 18:29:13 +0100
Commit message:

 remove OGRE.Rproj
 
Package: OGRE
Commit: 66abac134b214586a7b8db8f031cebb03bf5081d
Author: svenbioinf <svenbioinf@gmail.com>
Date: 2021-11-24 17:48:35 +0100
Commit message:

 gitignore
 
Package: MSnbase
Commit: e62ea6c3a6dad721311506522212b4e22f15aa0d
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-11-24 17:46:28 +0100
Commit message:

 Merge branch 'master' of github.com:lgatto/MSnbase
 
Package: MSnbase
Commit: c7ca34db55ee89e672a3bdebb9f293a289e90dc2
Author: Laurent Gatto <laurent.gatto@gmail.com>
Date: 2021-11-24 17:46:08 +0100
Commit message:

 Merge pull request #562 from lgatto/jomain

fix: fix issue in compareChromatograms 
Package: MSnbase
Commit: 012ee2a517b8aa762a64c50432239f209bc10684
Author: jorainer <johannes.rainer@gmail.com>
Date: 2021-11-24 12:40:18 +0100
Commit message:

 ci: force installation of magick package
 
Package: MSnbase
Commit: 73262ac0e305a64846291a09ded52fdb9b97bf0e
Author: jorainer <johannes.rainer@gmail.com>
Date: 2021-11-24 10:27:57 +0100
Commit message:

 ci: change to R 4.1 and Bioconductor 3.14

- Change to older R/BioC version because package rpx is not available for R 4.2.
 
Package: MSnbase
Commit: 20149c32fdfb3ec5bc3b14368e4159f3beb39e6c
Author: jorainer <johannes.rainer@gmail.com>
Date: 2021-11-24 08:38:53 +0100
Commit message:

 ci: remove installation of preprocessCore and ProtGenerics
 
Package: MSnbase
Commit: e2a2251a15c7f20ee33931a3166d6aca8949510c
Author: jorainer <johannes.rainer@gmail.com>
Date: 2021-11-24 07:44:09 +0100
Commit message:

 ci: use new GH action

- Use newer format of the GH action.
- Bump version.
 
Package: MSnbase
Commit: 70d49122eabce1644adda556af3d16fd40b56afd
Author: jorainer <johannes.rainer@gmail.com>
Date: 2021-11-23 22:08:27 +0100
Commit message:

 fix: fix issue in compareChromatograms
 
Package: MSnbase
Commit: 5bc69355cee94ad62bce8f003e810d5a26aac0ec
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-11-19 15:24:08 +0100
Commit message:

 Merge branch 'master' into devel
 
Package: MSnbase
Commit: 3009ae9b9d26a45ab4be5fdd5345b561d7a3f5d2
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-11-13 13:37:16 +0100
Commit message:

 Merge branch 'master' into devel
 
Package: MSnbase
Commit: 7c0e6aa35bb7cf5164e04f263a8bb57ded912169
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-11-13 13:35:58 +0100
Commit message:

 Merge branch 'master' of git.bioconductor.org:packages/MSnbase into devel
 
Package: sciCNV
Commit: 9d672b41cd769f414c89cf3c882e07e3c80546b8
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-24 10:47:50 -0500
Commit message:

 modifying vignettes (10)
 
Package: healthyControlsPresenceChecker
Commit: 75bf230a23d0e57cdeb8b33ac4f18bd57944bcee
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-24 10:03:37 -0500
Commit message:

 committed changes locally
 
Package: BOBaFIT
Commit: afa24122efb5a1e68135fc2de5babcffd05f3e79
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-24 15:00:44 +0100
Commit message:

 version 18 - all changes are fixed
 
Package: BOBaFIT
Commit: 44a28d555a8fca8b6769d0ac7387d5c8b240ee05
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-24 12:30:37 +0100
Commit message:

 .
 
Package: BOBaFIT
Commit: 9b54dcaa90fd96587279fa37185422412ffcb4e0
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-24 12:29:18 +0100
Commit message:

 Format arg. in PlotChrChrosome fun.
 
Package: BOBaFIT
Commit: 4f5bf5f5da39dbf946d0c431a1977125a42ab288
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-23 15:04:15 +0100
Commit message:

 80-character width limit
 
Package: BOBaFIT
Commit: 22b7efd10250da1c5186de156ea05c511c881e8a
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-17 17:13:28 +0100
Commit message:

 verbose argument in PlotChrCluster
 
Package: BOBaFIT
Commit: 7ff9e59fa99424165a6dec14c269920f09b35ef4
Author: gaia-mazzocchetti <67413031+gaia-mazzocchetti@users.noreply.github.com>
Date: 2021-11-17 16:33:34 +0100
Commit message:

 verbose argumet in DRrefit and computeNormalChromosome
 
Package: epialleleR
Commit: df5e9e92beb04f386d13a6642123687eed10a4d0
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-24 14:34:52 +0100
Commit message:

 merged
 
Package: epialleleR
Commit: e174d4c70334094bc1d53412438a59813bda0d07
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-22 17:15:29 +0100
Commit message:

 thresholding fixed
 
Package: epialleleR
Commit: e3f30b22ad988c3450d59855ccba1a2498f1a19b
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-22 15:37:38 +0100
Commit message:

 more cx_report improvments
 
Package: epialleleR
Commit: a761661bf330628d1bbe81447ec3f671001b5b3a
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-22 10:57:00 +0100
Commit message:

 small cx_report improvments
 
Package: epialleleR
Commit: f1fbdcb31941602cc6fe85e66e8479a255f6f162
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-22 09:35:16 +0100
Commit message:

 thread pool fix
 
Package: epialleleR
Commit: 0ba2c3679737731e05760a9916b2ff59f2164176
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-22 08:28:00 +0100
Commit message:

 workflow fix
 
Package: epialleleR
Commit: 9200641d75dd1cd69a98e6d17816fe102374c50c
Author: Oleksii.Nikolaienko <oleksii.nikolaienko@uib.no>
Date: 2021-11-21 19:06:00 +0100
Commit message:

 small reading opts
 
Package: BindingSiteFinder
Commit: 5008b01badc938bf1cff3483a3866fabe2f5c9fb
Author: Mirko Brüggemann <mirko_brueggemann@gmx.de>
Date: 2021-11-24 10:43:56 +0100
Commit message:

 Update version
 
Package: BindingSiteFinder
Commit: 8531bded50358e751754746325da9d5ba62e5e7f
Author: Mirko Brüggemann <mirko_brueggemann@gmx.de>
Date: 2021-11-24 10:43:44 +0100
Commit message:

 Update version

Merge branch 'master' of git.bioconductor.org:packages/BindingSiteFinder

# Conflicts:
#	DESCRIPTION
 
Package: BindingSiteFinder
Commit: 40caaaf847a3f69f5c6165962782185a9d7f8a82
Author: Mirko Brüggemann <mirko_brueggemann@gmx.de>
Date: 2021-11-24 10:38:18 +0100
Commit message:

 coverageOverRanges output order matches now input order
 
Package: GBScleanR
Commit: d76ecf939b79bc03bbd39029f112285989ea46c9
Author: tomoyukif <f.tomoyuki@okayama-u.ac.jp>
Date: 2021-11-24 18:37:22 +0900
Commit message:

 for bioc
 
Package: ggtreeExtra
Commit: 42c843cccc635a852a9441ec513be3381e7d00d4
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-24 17:23:50 +0800
Commit message:

 update news and bump version
 
Package: ggtreeExtra
Commit: 9f3006cb36dca7c057c072450083f65c73c4794f
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-24 17:23:25 +0800
Commit message:

 import geom_text
 
Package: MicrobiotaProcess
Commit: 7de79a1b908d815a2fdcc34f1d58a71c7062ccac
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-24 17:18:13 +0800
Commit message:

 update news and bump version
 
Package: MicrobiotaProcess
Commit: 74d90f1a9703855ac6fa0e80462155966e6a33c9
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-24 17:16:39 +0800
Commit message:

 update mp_plot_abundance adding heatmap option
 
Package: MicrobiotaProcess
Commit: 320f769b1632cc6361d2c8846cf9e40da1e044ba
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-23 18:05:07 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: c0769901795b4e843d85228add95d92f10d407f3
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-23 17:55:23 +0800
Commit message:

 update mp_plot_diff_res
 
Package: MicrobiotaProcess
Commit: e23524bc2023c4d210d1caaf6da9c9896399728e
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-22 20:45:28 +0800
Commit message:

 update news and bump version
 
Package: MicrobiotaProcess
Commit: 630282c83993b3ed6383de8864c9c20e5cd7551d
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-22 20:43:16 +0800
Commit message:

 add mp_plot_diff_res for visualizing the result of mp_diff_analysis
 
Package: MicrobiotaProcess
Commit: dcfa51108dd8ac1427fc6ab243c9387aee372455
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-22 20:42:19 +0800
Commit message:

 fix a bug for rf method
 
Package: MicrobiotaProcess
Commit: 5cc3ab31df7b780fe6369c18f301c172bc03d27d
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-22 20:41:21 +0800
Commit message:

 update example
 
Package: GBScleanR
Commit: 2fc0aeb092b6f55d799d74fc791431377be5dd0e
Author: tomoyukif <f.tomoyuki@okayama-u.ac.jp>
Date: 2021-11-24 18:12:10 +0900
Commit message:

 fix test
 
Package: GBScleanR
Commit: 77e8264d5e818c416188cf90a85d9ab0ae8f920b
Author: tomoyukif <f.tomoyuki@okayama-u.ac.jp>
Date: 2021-11-24 17:49:32 +0900
Commit message:

 20211124 fix for Bioconductor
 
Package: sesame
Commit: 84951c31986a215a8044f2de24ced6add0253aa0
Author: Wanding Zhou <zhouwanding@gmail.com>
Date: 2021-11-23 22:55:04 -0500
Commit message:

 bump to 1.13.3, another attempt to solve the C stack limit issue
 
Package: FindIT2
Commit: aea7f14081b5156918f190b4895047167922b62f
Author: GuandongShang <shangguandong1996@163.com>
Date: 2021-11-24 08:50:32 +0800
Commit message:

 add news in NEWS.md 
Package: sciCNV
Commit: 9e077dbeb9e13586ae2166edd2bcf33add07561c
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-23 18:00:59 -0500
Commit message:

 modifying vignettes (9)
 
Package: xcms
Commit: c96763830102998a590ecb8e468a832191dd8049
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-22 23:49:37 +0100
Commit message:

 Bump version
 
Package: mzR
Commit: 3271d295a08958aed9a17ebf55d5377cfe609b14
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-23 23:15:45 +0100
Commit message:

 Fix DESCRIPTION 
Package: sciCNV
Commit: e033893ca9af4bb51e86ea1776cafef9fc86d337
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-23 17:00:58 -0500
Commit message:

 modifying .gigignore
 
Package: funtooNorm
Commit: 00aa8692d5bfc978673cb7980b9933b20b2db451
Author: Kathleen.Klein@ladydavis.ca <kathleen.klein@d1p-hydrars04.ldi.lan>
Date: 2021-11-23 15:54:41 -0500
Commit message:

 Merge remote-tracking branch 'upstream/master'

correction of identying sex.
 
Package: funtooNorm
Commit: 5c943fbdcb5ad34f2667bf87ad3bbb607ca4a9df
Author: Kathleen Klein Oros <kathleen.klein@mail.mcgill.ca>
Date: 2021-11-23 14:21:10 -0500
Commit message:

 Update SampleSet.R

fix for identifying sex 
Package: funtooNorm
Commit: 37fd0b8f9abb9217d2245a35586d5f71e9eca5d4
Author: Kathleen Klein Oros <kkleinoros@users.noreply.github.com>
Date: 2019-01-14 15:32:22 -0600
Commit message:

 Merge pull request #45 from DanielEWeeks/master

Fix for data with missing probes 
Package: funtooNorm
Commit: 174b5b9f30c0cda807869b786c2cecc4754a0e15
Author: Daniel E. Weeks <weeks@pitt.edu>
Date: 2019-01-11 17:37:21 -0500
Commit message:

 Further polishing of fromRGChannelSet
 
Package: funtooNorm
Commit: 2b9fd2c2c4db20741141e957c3c73a08477c624b
Author: Daniel E. Weeks <weeks@pitt.edu>
Date: 2019-01-11 17:10:21 -0500
Commit message:

 Fixing typo.
 
Package: funtooNorm
Commit: d488edd93be61d32a240a544d9aa235c15630e40
Author: Daniel E. Weeks <weeks@pitt.edu>
Date: 2019-01-11 17:03:56 -0500
Commit message:

 Adjusting to guard against probes in the annotation that are not
in the rgSet.
 
Package: funtooNorm
Commit: d0438ca625dee1179ba7f5ae18c73e33f4d18c99
Author: kkleinoros <kathleen.klein@mail.mcgill.ca>
Date: 2019-01-09 12:56:21 -0600
Commit message:

 subsetted object fix
 
Package: imcRtools
Commit: 9450e5e194a8ab43e1ff9ea2cf9d14fe00d2b7d8
Author: Nils Eling <nilseling@users.noreply.github.com>
Date: 2021-11-22 21:43:16 +0100
Commit message:

 Merge pull request #47 from BodenmillerGroup/bug_fix

Bug fix 
Package: imcRtools
Commit: b2a1ba19589930e63f886b1ed2b3d81d20de17a4
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-22 19:09:35 +0100
Commit message:

 Fixed count interactions test
 
Package: imcRtools
Commit: ca42155ad84e3b53fe43b9f132ddca37a83eb96b
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-22 18:26:26 +0100
Commit message:

 Fixed histocat count
 
Package: imcRtools
Commit: 13abab9969342941b32d4511c5de5768e5db2e1c
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-18 16:34:16 +0100
Commit message:

 Adjusted to allow all missing labels
 
Package: imcRtools
Commit: 409086bc39d7ebbd700d289639153e22404640b4
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-16 18:42:32 +0100
Commit message:

 Removed tests from windows
 
Package: imcRtools
Commit: 5b56ccddf8325933d3980993181fd939cef45ba2
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-16 13:38:23 +0100
Commit message:

 Added citation
 
Package: imcRtools
Commit: b0bc27e4b15131c73c783ed3a0101bc2d1da1f4c
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-16 13:20:21 +0100
Commit message:

 Added citation to preprint
 
Package: imcRtools
Commit: 75d1d1c66936a6c60644bcd192d4559dd2e0ed7f
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-16 13:02:23 +0100
Commit message:

 Fixed bug when some combinations are missing
 
Package: imcRtools
Commit: 0f45753b70af4a600f06052ea1488cfad902ec87
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-10 18:03:41 +0100
Commit message:

 Added more info on what Bioconductor can do
 
Package: imcRtools
Commit: a2677d44e1d7b216efd62936c1ade985fe694c9d
Author: nilseling <nils.eling@gmx.de>
Date: 2021-11-01 08:37:17 +0100
Commit message:

 Install testthat as last package
 
Package: imcRtools
Commit: 8ae3fd93553877fa90b459541e860cd4e6b38438
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-31 19:51:32 +0100
Commit message:

 Manual install of testthat
 
Package: imcRtools
Commit: e3ecc9497f210cc0fcac48b4490c9b4031603e86
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-31 10:04:46 +0100
Commit message:

 Added libnode-dev
 
Package: imcRtools
Commit: f3a9018782f4e9a79d3f0f196921ab78ca41cf62
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-30 20:39:30 +0200
Commit message:

 Added gdal
 
Package: imcRtools
Commit: 5a4f1a51ccdbd70ee414517fc26e4dcd18509a59
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-30 15:24:20 +0200
Commit message:

 Added pandoc
 
Package: imcRtools
Commit: 728dbc0aa8499d6398667a730c696f4c1ec69b64
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-30 13:37:01 +0200
Commit message:

 Added gdal
 
Package: imcRtools
Commit: 811da2b96ed2f3c8c89e35682f4814464b063e25
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-30 12:02:43 +0200
Commit message:

 Added libcurl4-gnutls-dev
 
Package: imcRtools
Commit: 822b766621e0d5e4e6f5a363c548d1086b82f115
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-29 19:46:09 +0200
Commit message:

 Added curl
 
Package: imcRtools
Commit: eac0624fcf9a50210edbb82c125121b3e47b6f7c
Author: nilseling <nils.eling@gmx.de>
Date: 2021-10-29 16:20:52 +0200
Commit message:

 Changed containers
 
Package: CNVMetrics
Commit: ee570d2c3aac0eac3b0eb9572714717105f0de03
Author: Astrid Deschenes <adeschen@hotmail.com>
Date: 2021-11-23 15:25:03 -0500
Commit message:

 Update package version and date in DESCRIPTION file
 
Package: PPInfer
Commit: 6722a9aee022b635b889fa79b193b5cdbbed8fbf
Author: dongminjung <dongminjung@Dongmins-MacBook-Pro.local>
Date: 2021-11-24 00:07:06 +0900
Commit message:

 update
 
Package: FindIT2
Commit: 020e1531d6265f908f7951e65046337856f0436e
Author: GuandongShang <shangguandong1996@163.com>
Date: 2021-11-23 20:55:48 +0800
Commit message:

 "version bump in devel 1.1.2" 
Package: FindIT2
Commit: 2281ff8f27b96b5a0c5ec1297526f8a57e1d72af
Author: GuandongShang <shangguandong1996@163.com>
Date: 2021-11-23 20:54:13 +0800
Commit message:

 fix bug when type in colData is factor

integtate_replicates function 
Package: epistack
Commit: 4d882caa8e7fc3d068717bb37c69f5db31f2148f
Author: Guillaume Devailly <gdevailly@hotmail.com>
Date: 2021-11-23 10:57:24 +0100
Commit message:

 Merge pull request #22 from GenEpi-GenPhySE/dev

CLI 
Package: epistack
Commit: fc76cb42d89ffb39ffbf4a7070f00fe9322507b0
Author: Guillaume Devailly <gdevailly@hotmail.com>
Date: 2021-11-23 10:34:13 +0100
Commit message:

 fixing cran check
 
Package: epistack
Commit: cbe33607d96e6a666a8cdf8b4144884a1c52b5ad
Author: Guillaume Devailly <gdevailly@hotmail.com>
Date: 2021-11-23 10:08:26 +0100
Commit message:

 epistack fails on devel
trying this for a fix?
 
Package: epistack
Commit: 1a3a16212f73aec50d44c883294559e193a3726d
Author: Guillaume Devailly <gdevailly@hotmail.com>
Date: 2021-11-22 14:43:15 +0100
Commit message:

 main in plotEpistack
and horizontal bins label in plotBinning
 
Package: epistack
Commit: 2409d803f82c88a5ed2f54edb031e509042cbc27
Author: Guillaume Devailly <gdevailly@hotmail.com>
Date: 2021-11-22 14:03:03 +0100
Commit message:

 addition of an Rscript in inst\
CLI for {epistack}, in dev.
 
Package: sparseMatrixStats
Commit: b09d6087525faf6a46407b7ab4461e4b3b8023f6
Author: const-ae <artjom31415@googlemail.com>
Date: 2021-11-23 10:46:55 +0100
Commit message:

 Add SystemRequirements: C++11 back to DESCRIPTION

The code base is using C++11 features and apparently some compilers
need to be explicitly told to enable those features.
 
Package: immunoClust
Commit: ae358b20a3d5801d4b91e172748caa52d8bd2c13
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:56:41 +0100
Commit message:

 cells-method, minor improvements, code cleaning
 
Package: immunoClust
Commit: bb5cdfb24edf40c7a2240713f87e844c18b4dd51
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:56:00 +0100
Commit message:

 cells-method, events-method
 
Package: immunoClust
Commit: 9113d8453223c70018b58f38af26d7024e7b5f25
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:54:27 +0100
Commit message:

 cells-method, aposteriori
 
Package: immunoClust
Commit: cf17e530c2917824cebbe5839a01785fb1d7c715
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:53:41 +0100
Commit message:

 code cleaning
 
Package: immunoClust
Commit: 02e0d5d405862f93acb14a99f3b002068b8c6608
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:52:10 +0100
Commit message:

 cells methid, aposteriori
 
Package: immunoClust
Commit: 2b900da0f7d798d0e026029719a5a42a45aaa93d
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:51:16 +0100
Commit message:

 minor plot improvement
 
Package: immunoClust
Commit: bfb97763cd72d76ee1e40559cd114ee5d51a9062
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:49:51 +0100
Commit message:

 extended events method
 
Package: immunoClust
Commit: 89437b15829771c5fd60f4a6121c7fc2fb7499e8
Author: Till Sörensen <till-antoni.soerensen@charite.de>
Date: 2021-11-22 16:47:28 +0100
Commit message:

 posterior to aposteriori
 
Package: sciCNV
Commit: 0d732e74df2629c89b6f209292add20497eac6cc
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-22 23:34:09 -0500
Commit message:

 modifying vignettes (8)
 
Package: recountWorkflow
Commit: a256a90985dec761e3649b68b6de6b7727a34630
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:55:50 -0500
Commit message:

 Also install derfinderPlot from Github since regionReport 1.29.1 needs derfinderPlot 1.29.1 which is currently available only via GitHub
 
Package: regutools
Commit: c4d9394264d4ba8cd9eda45a9428be543b1b297d
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:51:31 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: brainflowprobes
Commit: 65f96c93e4495f4253c7b72960ca74d9279c92d4
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:49:05 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: recountWorkflow
Commit: dcf986618d56b4442a68ce49a6d94e351283f3fd
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:48:05 -0500
Commit message:

 Revert https://github.com/LieberInstitute/recountWorkflow/commit/d76a9134f919bf22f6622e42f9bc82330fcec623#diff-5ccdee666fc53bca36cf5940f57270db9ee6870666c15eda1120a2bc8b69b327L183-L185
 
Package: recountWorkflow
Commit: d76a9134f919bf22f6622e42f9bc82330fcec623
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:45:27 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: biocthis
Commit: 341ae80706ecc2950e0a50bc36dc7416f2a5d173
Author: Leonardo Collado-Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:20:46 -0500
Commit message:

 Merge pull request #22 from mfansler/patch-1

Suggest testthat when invoking `use_bioc_vignette` 
Package: biocthis
Commit: 7f1583fa45f2d3a45d5b541a75f5e3cb5dea1bfd
Author: Mervin Fansler <mef3005@med.cornell.edu>
Date: 2021-09-15 18:53:04 -0400
Commit message:

 include testthat 
Package: biocthis
Commit: 6a928f81c1979566e72ca2b332a0813f969b6272
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:19:35 -0500
Commit message:

 Hmm, fix the template. Used git revert 1c5b19c then re-added the new comment related to #25
 
Package: biocthis
Commit: 1c5b19c4e27fa6831f2a64b6f76a3ecee0671b11
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 22:14:37 -0500
Commit message:

 Add more comments related to the docker setup. Resolve #25
 
Package: bambu
Commit: 399b30a373106ff0e08271c34f68e747ee5c5a66
Author: Chen Ying <chen_ying@gis.a-star.edu.sg>
Date: 2021-11-23 10:16:11 +0800
Commit message:

 bug fix: update saved objects using updated Bico 3.14 packages
 
Package: bambu
Commit: 68295c1756dd1626fb33b88328b6cacbe9f7f64b
Author: Chen Ying <chen_ying@gis.a-star.edu.sg>
Date: 2021-11-23 08:04:30 +0800
Commit message:

 Merge remote-tracking branch 'upstream/master'
to fix the test error reported in upstream
 
Package: bambu
Commit: dc01e0d7d391217b2e0672e539439115d049a8e4
Author: Chen Ying <chen_ying@gis.a-star.edu.sg>
Date: 2021-10-25 15:52:21 +0800
Commit message:

 remove doi link for now as it's being blocked 
Package: sciCNV
Commit: f0c42e82ca4728f3f052de31c77fea51eb0afd75
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-22 21:04:00 -0500
Commit message:

 modifying vignettes (7)
 
Package: sciCNV
Commit: 9e863d33d07c95ffe6bfd07d1be7c8db85ce1b60
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-22 21:01:41 -0500
Commit message:

 modifying vignettes (6)
 
Package: sciCNV
Commit: 13e1e74684e82d7718461394a64b2a431e908310
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-22 20:57:43 -0500
Commit message:

 modifying vignettes (6)
 
Package: spatialLIBD
Commit: 2516ba6892a72cb46a601bf6145596c09d3ea842
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 20:47:50 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: derfinderData
Commit: 77efdcc573d9add7a0d946ccbd48adf671516cc6
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 20:03:06 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: recount3
Commit: ad3cecb0e7e6e9ed8779940e375ec003f2873e9a
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 20:00:54 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: megadepth
Commit: 3609d89633659b277fa0f03795c390b8435e1965
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:58:58 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: derfinderHelper
Commit: 31ad97e1ec5993664515ad5d4c169b70f2a76a02
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:56:26 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: recount
Commit: 10f29f9d44906f798aa3a7655ae40ac269c36ae5
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:53:08 -0500
Commit message:

 Used biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: regionReport
Commit: 8c39b21cd4255b6aebb7b38262c6a65c07a3fa96
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:47:27 -0500
Commit message:

 v1.29.1 -- require derfinderPlot 1.29.1
 
Package: regionReport
Commit: 0e6ee3d7b4e9677c610bbbe1d724714a8da2ef4c
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:46:52 -0500
Commit message:

 install github version of derfinderPlot for bioc 3.15
 
Package: regionReport
Commit: 076921cc5fd8d0fa72d7e28fd859eef4ca163afc
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:42:51 -0500
Commit message:

 use biocthis bioc 3.14
 
Package: derfinderPlot
Commit: c6ca8d2edfe1d5271f2eb601cdd268f33f3e230c
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:33:05 -0500
Commit message:

 v1.29.1
 
Package: derfinderPlot
Commit: 07120718af9460781150fa49b3779b10b72c9854
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:29:29 -0500
Commit message:

 update biocthis with bioc 3.14
 
Package: derfinderPlot
Commit: 13d9e975d1b393268b00b2bdfb2fe6c6580c8435
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 19:28:06 -0500
Commit message:

 Work-around https://github.com/lawremi/ggbio/issues/159
 
Package: sciCNV
Commit: 7891cd33433b85d9eff76cbdd4285c69e0bfba87
Author: alimahdipour <ali.mahdipour@gmail.com>
Date: 2021-11-22 19:12:17 -0500
Commit message:

 modifying vignettes (5)
 
Package: biocthis
Commit: 0235fb1d474f57f38f8ef5361c59f6e0948ae4c5
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 18:48:22 -0500
Commit message:

 biocthis::use_bioc_github_action("RELEASE_3_14")
 
Package: BiocCheck
Commit: 21d8b52952a4425e0579b165d4bb35248ca6f99b
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-22 18:13:40 -0500
Commit message:

 version bump 1.31.13
 
Package: BiocCheck
Commit: f59525e1e702df14c9e3a49aa014a1801d480159
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-22 18:13:37 -0500
Commit message:

 revert subscription check to affect all checked packages
 
Package: Rsubread
Commit: e53fb5ab04407f1e52cecb4b70e411a0e375729e
Author: Yang Liao <liao_y@svr2672.licr.unimelb.edu.au>
Date: 2021-11-23 10:14:01 +1100
Commit message:

 removed debug output
 
Package: xcms
Commit: a44d393f3462b5110c419029dcb6b6c53a794162
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-22 23:47:50 +0100
Commit message:

 Merge pull request #586 from sneumann/fix/removeMzDataTests

Fix/remove mz data tests 
Package: xcms
Commit: 7300273ff94b50db15c21da21c1cf4ba87e6497d
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-22 11:30:49 +0100
Commit message:

 Surviving mzR without mzData
 
Package: xcms
Commit: 293545305b959d53a719ed36b0f394d1cbc0f5f3
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-20 17:34:49 +0100
Commit message:

 Use mzML instead of mzData files in testing and vignettes
 
Package: msdata
Commit: 50810dd97120a0fb83d387306ed1822cb7e4ac0d
Author: Steffen Neumann <sneumann@ipb-halle.de>
Date: 2021-11-20 17:36:05 +0100
Commit message:

 Remove notion of mzData
 
Package: recount
Commit: ee91e6bed7b6392996dd92f21261501591f8d4d8
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 17:40:41 -0500
Commit message:

 Used biocthis::use_bioc_github_action(biocdocker = "devel")
 
Package: S4Vectors
Commit: b1774d171474d39066fce2670dcc7f32ecbd1fe4
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:42:19 -0800
Commit message:

 Backward compatibility with old DataFrame instances

A few ugly hacks that provide some level of backward compatibility with
old DataFrame instances. In particular, these hacks now make it possible
to display a Vector derivative (e.g. GRanges object) where the metadata
columns are stored in an old DataFrame instance. Without these hacks,
calling show() on such object produces:

    Error: C stack usage  7979284 is too close to the limit
 
Package: biocthis
Commit: 0bbf986a2713a89012e5f85ce90b9f3101435ff6
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 17:37:37 -0500
Commit message:

 test with BioC 3.15
 
Package: Rsubread
Commit: 1cc0f764fe76f9f82526bd64b0bdb24b89a10ecf
Author: Yang Liao <liao_y@svr2672.licr.unimelb.edu.au>
Date: 2021-11-23 09:35:40 +1100
Commit message:

 Replaced cellCounts with the new implementation
 
Package: recount
Commit: 7f275d2c5758474ce39eedf760750fa242a87663
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 17:34:34 -0500
Commit message:

 Fix R version for BioC 3.15
 
Package: recount
Commit: 79df622af0d19c47a75743e2601f7eaa9fb5772b
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 17:30:58 -0500
Commit message:

 Use BioC 3.15 on devel
 
Package: recount
Commit: 59f330498b8091394ebf69e4852744072996c5f5
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 17:28:39 -0500
Commit message:

 Disable gencode v25 tests since they have been failing frequently due to Gencode's ftp server
 
Package: depmap
Commit: ea213d57497163dad674a80043d587c8391bed95
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-11-22 22:38:54 +0100
Commit message:

 Merge pull request #72 from UCLouvain-CBIO/21Q4

finished 21Q4 changes 
Package: depmap
Commit: c557035b7421ddbc243cbb6d58985c21188b2b46
Author: tfkillian <theo.killian@gmail.com>
Date: 2021-11-22 22:08:45 +0100
Commit message:

 updated version to 1.9.1 in NEWS
 
Package: depmap
Commit: 40af099cc581239ae8811fc3e1040ce9e2e2721f
Author: tfkillian <theo.killian@gmail.com>
Date: 2021-11-22 22:06:19 +0100
Commit message:

 updated version to 1.9.1
 
Package: depmap
Commit: f380018edfd697209ed6e3ddda0236c07d35cc84
Author: T F Killian <36329073+tfkillian@users.noreply.github.com>
Date: 2021-11-22 21:59:35 +0100
Commit message:

 Merge branch 'master' into 21Q4 
Package: depmap
Commit: 8ef9ccd7af42d71bb56f579a102764419b356bec
Author: tfkillian <theo.killian@gmail.com>
Date: 2021-11-19 21:44:25 +0100
Commit message:

 changed version to 1.9.1
 
Package: depmap
Commit: bd143f184ca9c7fd92a1a8cb5c93e1c6c7fdb737
Author: tfkillian <theo.killian@gmail.com>
Date: 2021-11-16 15:12:59 +0100
Commit message:

 finished 21Q4 changes
 
Package: megadepth
Commit: 738b3ac07fa0d9d9b633ae512e23ac9b056dd016
Author: Leonardo Collado Torres <lcolladotor@gmail.com>
Date: 2021-11-22 16:46:45 -0500
Commit message:

 Merge branch 'master' of github.com:LieberInstitute/megadepth
 
Package: megadepth
Commit: 6ea72d7496837ed93e689aabebc8a088bd7a5003
Author: David Zhang <dyzhang32@gmail.com>
Date: 2021-10-19 16:59:06 +0100
Commit message:

 refactor: update message for installing megadepth interactively

match message between interactive and non-interactive installation messages, so both pass tests
 
Package: healthyControlsPresenceChecker
Commit: 98be8078d3bfb3c359f94eb1237eae08f364f0e3
Author: davidechicco <davide.chicco@gmail.com>
Date: 2021-11-22 15:05:00 -0500
Commit message:

 committed changes locally
 
Package: HMMcopy
Commit: bcff3bf9e73286d5235afd6db0e5b51017c4a539
Author: Daniel Lai <dalai@bccrc.ca>
Date: 2021-11-22 11:43:23 -0800
Commit message:

 Updated description
 
Package: HMMcopy
Commit: c1ed34f30f6cd5f61121bedc3cb077a892e6d2d6
Author: Daniel Lai <dalai@bccrc.ca>
Date: 2021-11-22 11:39:52 -0800
Commit message:

 Merge branch 'master' of git.bioconductor.org:packages/HMMcopy
 
Package: HMMcopy
Commit: e152093a1afa64defdca71bd55046c71ad45e4c7
Author: Daniel Lai <dalai@bccrc.ca>
Date: 2021-11-22 11:38:59 -0800
Commit message:

 BUG FIX: rangedDataToWig
 
Package: atena
Commit: 56b0b1c4049c1bf58116d83569cfbbef1cd969cf
Author: beacalvo <beacalvo96@gmail.com>
Date: 2021-11-22 19:45:51 +0100
Commit message:

 Updating documentation and unit tests.
 
Package: atena
Commit: 8404be5a3e42f435858573464e2eb6e8f79e89e5
Author: beacalvo <beacalvo96@gmail.com>
Date: 2021-11-22 14:52:35 +0100
Commit message:

 Modified approach to identify multimapping reads in Telescope
 
Package: atena
Commit: 588ef8eeb4ff4d3d976ea449e97d13ed7292fbc9
Author: beacalvo <beacalvo96@gmail.com>
Date: 2021-11-22 13:11:37 +0100
Commit message:

 Implemented the use of the highest AS value when different alignments of the same read overlap the same feature in the Telescope method.
 
Package: atena
Commit: 51de27d8e0c17508d1fe8117eea17e24730a7c6f
Author: beacalvo <beacalvo96@gmail.com>
Date: 2021-11-22 11:25:26 +0100
Commit message:

 Implemented minimum required overlap for the Telescope method
 
Package: atena
Commit: 1a0d0381c8a52e28b6fdef8eb114e7ff10be8477
Author: beacalvo <beacalvo96@gmail.com>
Date: 2021-11-21 16:25:05 +0100
Commit message:

 Implemented 'no_feature' in TE expression quantification. Improved gene quantification approach by modifying correctPreference function
 
Package: CRISPRseek
Commit: b6f983b6bdf2d483d40abcd93521bd266d81cc83
Author: Julie Zhu <juliezhu@macbook-pro.fios-router.home>
Date: 2021-11-22 12:39:42 -0500
Commit message:

 addressed issue at https://support.bioconductor.org/p/9140582/
 
Package: BASiCS
Commit: 0438367dfba1afd00b35bbe878c522ce417ede35
Author: Alan O'Callaghan <alan.ocallaghan@outlook.com>
Date: 2021-11-22 16:56:02 +0000
Commit message:

 Dont include FC in resdisp test - mentioned in #232
 
Package: BiocCheck
Commit: d7084804170b97000d21efca4ae8ce2207d14caf
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-22 11:10:02 -0500
Commit message:

 version bump 1.31.12
 
Package: BiocCheck
Commit: 175e36a04a8a7e3fa266d0d7bbd026c83b022ef3
Author: LiNk-NY <marcel.ramosperez@roswellpark.org>
Date: 2021-11-22 11:09:52 -0500
Commit message:

 move bioc-devel mailing list and suppport site registration checks to new package checks
 
Package: VariantAnnotation
Commit: ba3b85c30b9b8b2c3840426697519b494db5753c
Author: vjcitn <stvjc@channing.harvard.edu>
Date: 2021-11-22 10:59:40 -0500
Commit message:

 repair mishandling of description metadata in ALT fields
 
Package: QFeatures
Commit: 252a37beb0da0524cbef633a26368d849e151cf6
Author: Laurent Gatto <laurent.gatto@gmail.com>
Date: 2021-11-22 14:50:48 +0100
Commit message:

 Merge pull request #153 from cvanderaa/master

Implmented an updateObject() method for QFeatures objects (issue #152) 
Package: QFeatures
Commit: 1558b0561b7997f1f222629180a5a3d02ff58d63
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-22 11:31:44 +0100
Commit message:

 doc: compiled docs for updateObject methods
 
Package: QFeatures
Commit: 157e2a4b72645128b2b672b8b7561031ce2e088e
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-22 11:20:29 +0100
Commit message:

 refactor: improved updateObject method for QFeatures and added updateObject methods for AssayLinks and AssayLink objects
 
Package: QFeatures
Commit: 10e13bc91b316f3575f24bfeb91c31fd556ef146
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-19 14:28:00 +0100
Commit message:

 refactor: improve updateObject implementation
 
Package: QFeatures
Commit: a3550c0c0251766d1bffcb564eaadb0b95cd4151
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-19 09:34:18 +0100
Commit message:

 test: improved updateObject test
 
Package: QFeatures
Commit: 9159dbe4dba88b5b58a9c8719d90bb9b0a76e2be
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-19 00:32:18 +0100
Commit message:

 fix: implemented an  method for  objects.
 
Package: QFeatures
Commit: 9c3547bb8054f401667806bcab53d800b2860cd0
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-11-04 15:41:27 +0100
Commit message:

 Merge branch 'master' of https://github.com/rformassspectrometry/QFeatures
 
Package: QFeatures
Commit: 65728417ea8db3983fcf6b661d1a1497301e444b
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-10-27 06:44:30 +0200
Commit message:

 document use of adjacency matrices
 
Package: QFeatures
Commit: 5b422c1eb021bcebd63dd35f7ca296f53b451f94
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-10-27 06:42:46 +0200
Commit message:

 Merge branch 'adjacencyMatrix'
 
Package: QFeatures
Commit: 148ee685a58d521d5bd43b57e2754b7d3f08509c
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-10-27 06:41:46 +0200
Commit message:

 bump version for Bioc 3.15
 
Package: QFeatures
Commit: 35525a6a5b1a0889f6f7e3dbeee023ff1d54da9e
Author: lgatto <laurent.gatto@gmail.com>
Date: 2021-10-26 01:21:27 +0200
Commit message:

 docs: adjacency matrix
 
Package: QFeatures
Commit: 963dcea798246acbcd5b7f9888f2dd4e7f100612
Author: Laurent Gatto <laurent.gatto@uclouvain.be>
Date: 2021-08-09 22:38:06 +0200
Commit message:

 new gh devel version
 
Package: QFeatures
Commit: f10d11ec50ad6667a774ee7abe4eb60b3b23b227
Author: Christophe Vanderaa <vanderaa.christophe@gmail.com>
Date: 2021-07-23 12:16:59 +0200
Commit message:

 refactor: small tweaking of the QFeatures plot (again)
 
Package: hpar
Commit: 464e78148bfc38e681ab87cee6842b51c2cce895
Author: Laurent Gatto <laurent.gatto@gmail.com>
Date: 2021-11-22 14:29:42 +0100
Commit message:

 Merge pull request #13 from ManonMartin/master

new hpar version 
Package: hpar
Commit: dc2a6f44f3fc8df72431d8ce6b8bde383fca7f3f
Author: Manon Martin <manon.martin@uclouvain.be>
Date: 2021-11-22 13:26:03 +0100
Commit message:

 updated NEWS.md
 
Package: hpar
Commit: 2a21fdef3b31b7cfac93554087948b9100e199fa
Author: Manon Martin <manon.martin@uclouvain.be>
Date: 2021-11-22 13:24:00 +0100
Commit message:

 updated hpar version
 
Package: hpar
Commit: 764cd464329ce67ff67204e6d8840ef81c539b37
Author: Manon Martin <manon.martin@uclouvain.be>
Date: 2021-11-22 13:16:17 +0100
Commit message:

 updated hpa version
 
Package: ChAMPdata
Commit: 765eaa8f0eb5640cd4843a946092da5eb2a1001b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 03:15:09 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: BloodCancerMultiOmics2017
Commit: 59cb7cd47fb72d6bbe91a671017b8c3bdf435926
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 03:06:56 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: bsseqData
Commit: 01a2fa171cab33b7ca8d8b2536d401b3c7b3a372
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 03:00:38 -0500
Commit message:

 Pass serialized BSseq instances thru updateObject()
 
Package: Single.mTEC.Transcriptomes
Commit: 9de446dd08b9b776df7a6c350458ebdc8ecd948a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 00:26:07 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: WGSmapp
Commit: dcf5dd4116211719289100f41a1bd94ceb385add
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 00:24:03 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: VariantToolsData
Commit: befa3a52ab6a092a59989b2fdf49b222ffe5fbfb
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 00:17:13 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: TCGAWorkflowData
Commit: a91a6bea7231fdc8242c5d4bce6b47b66c676d29
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-22 00:14:48 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: spqnData
Commit: c8b325eb4c62344ae6cf0f07e33e86bcb4c76948
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:52:03 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: SomaticCancerAlterations
Commit: 89a259769ed652e80da01dcb6d1b565a6453192a
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:51:42 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: SCATEData
Commit: 8e0b031fe4618621e1d0c2b68d9433bf418bc2c7
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:43:35 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: SBGNview.data
Commit: 291f6fa52a2280202eb8a74db2444311c62da6e6
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:42:01 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: sampleClassifierData
Commit: 4c3069eb367d99d9be3f46b63b904b52229af65c
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:41:14 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RRBSdata
Commit: 9477f6c128aebd0d9d5f85b824dea82ac3231017
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:39:56 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RnBeads.rn5
Commit: 3eda4e4dd39256982de45aa3e8a249b598f448dd
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:32:53 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RnBeads.mm9
Commit: 222d347a942f4eedaee903f0706895ff47d5aeff
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:20:42 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RnBeads.mm10
Commit: de426e75409e45f1705825ddf86a8b58783ec24b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:08:16 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RnBeads.hg38
Commit: b72b42c99067bd4eb222952120f2849c80d1ce61
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 23:01:27 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: RnBeads.hg19
Commit: ba6c459b372e1535e1df021d3f94c85a3780108b
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 22:54:39 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: pepDat
Commit: 32eea8993009eeadb396bb3234d18160b4318909
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 22:35:07 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: pd.atdschip.tiling
Commit: c7fa523be4fadb5c521dd3aa037b4a122e8253dd
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 22:23:50 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: parathyroidSE
Commit: 12416e11b27d29d579e4f98c03e5689568362997
Author: Hervé Pagès <hpages.on.github@gmail.com>
Date: 2021-11-21 22:17:19 -0500
Commit message:

 Pass serialized S4 instances thru updateObject()
 
Package: MicrobiotaProcess
Commit: 6d0a5ca2876406cf798b7a614c959370b2cc2e8c
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-22 11:04:13 +0800
Commit message:

 update news and bump version
 
Package: MicrobiotaProcess
Commit: 7473b36fcb920b4cb1a747c8fc3b614d405ae15e
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-19 20:52:06 +0800
Commit message:

 update figure
 
Package: MicrobiotaProcess
Commit: 3f7950ff329bfb27083b5041a5314f3528e27103
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-19 20:48:21 +0800
Commit message:

 remove phyloseq class
 
Package: MicrobiotaProcess
Commit: d21a0b35aef019eee6d2491370d54bcecd148dc8
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-19 20:46:18 +0800
Commit message:

 remove phyloseq class
 
Package: MicrobiotaProcess
Commit: 29978ddcbdc1d6cce8079b03a9775faf618d4183
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-19 20:45:44 +0800
Commit message:

 remove phyloseq class
 
Package: MicrobiotaProcess
Commit: fbe9c39009bd45031083d841e87e4bf5081b7e8a
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-19 14:43:13 +0800
Commit message:

 update plot methods and mpse
 
Package: MicrobiotaProcess
Commit: cee9cbaff5d6c83ade6a4c9f19cdcede8101622d
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-18 21:56:14 +0800
Commit message:

 dtplyr
 
Package: MicrobiotaProcess
Commit: e5a04f9fd895d7dcbe1a0d3edd1ec99c127d30a5
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-18 21:55:32 +0800
Commit message:

 update MPSE function and convert phyloseq data to MPSE data
 
Package: MicrobiotaProcess
Commit: 2c9293fab45db36521175d452d4b933679d07005
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-18 11:34:15 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: 2055c5455d822ec7c1633bf4f92b37a14d34acdc
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-18 11:34:02 +0800
Commit message:

 speed up mp_cal_abundance
 
Package: MicrobiotaProcess
Commit: 4cd06b5d4b4c073289dd08da68f939d3926d8a51
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-17 22:22:32 +0800
Commit message:

 update seed up mp_cal_abundance
 
Package: MicrobiotaProcess
Commit: aa32c0b86cf652f13dcdbf34f2e3f688791cf77b
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-16 21:08:02 +0800
Commit message:

 update vignette
 
Package: MicrobiotaProcess
Commit: dcef393ee8b946106d05c82e5a56a39a34b0f403
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-15 20:42:59 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: cb62c486ca4dafbb5ef8063203e60cd2a5f6e700
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-15 20:42:46 +0800
Commit message:

 update mp_plot_abundance and mp_plot_ord
 
Package: MicrobiotaProcess
Commit: 5b05daf11326149e233c2a3840596a3c3394f895
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-15 14:57:44 +0800
Commit message:

 update example of mp_cal_dist
 
Package: MicrobiotaProcess
Commit: 5ee6414133a7414756bcb3eb1e00792eadc920a4
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-12 15:57:17 +0800
Commit message:

 update show
 
Package: MicrobiotaProcess
Commit: 313af3935d050bffdfeb82a50d5efffce2062e27
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-10 21:49:55 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: b093dd0b68271bdf568a96faff023fc71deff1f0
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-10 21:49:23 +0800
Commit message:

 update mp_plot_dist
 
Package: MicrobiotaProcess
Commit: edafc836a7b1fce1335f20bbd794db16992141bd
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 22:06:55 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: 1ab9bc01dc2fbfbf6e2db6400525439bf264aa20
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 22:05:22 +0800
Commit message:

 update as.MPSE for biom class
 
Package: MicrobiotaProcess
Commit: aee9f958bab3ff91aec5f4fa37d319973494a220
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 22:04:44 +0800
Commit message:

 speed up integrate of dist result with action="add"
 
Package: MicrobiotaProcess
Commit: 8536b170c1b8256a8a7f30d5c958b3e540a5f830
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 15:14:14 +0800
Commit message:

 update news
 
Package: MicrobiotaProcess
Commit: 3b42c9b3026f456d394d1fb1f302ace1836e49a9
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 15:01:41 +0800
Commit message:

 update show for MPSE
 
Package: MicrobiotaProcess
Commit: aa8742351f1f7354be9ff210d5202466d6319974
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 15:01:06 +0800
Commit message:

 update otutree<- method
 
Package: MicrobiotaProcess
Commit: 525937e64bf48ab8869706621da689540ac5c96c
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-09 15:00:19 +0800
Commit message:

 update select
 
Package: MicrobiotaProcess
Commit: 98994f26941e63f75092b67c37533ca817dbba9d
Author: xiangpin <xshuangbin@163.com>
Date: 2021-11-08 22:42:05 +0800
Commit message:

 update show
 

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