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GIT Logs

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

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Package: RNAshapeQC
Commit: 8293c4368d4896e2249d690b1f6f6a291babd228
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-30 11:50:01 -0600
Commit message:

 Version bump tp 0.99.4
Package: RNAshapeQC
Commit: d039925583ba56f8265b888cb9127ad9ab7cacf9
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-30 11:06:33 -0600
Commit message:

 Version bump to 0.99.3 (trigger rebuild)
Package: RNAshapeQC
Commit: a8a8a5c2a16dc391bef6830fd2c59adacea3f1fd
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-30 10:48:35 -0600
Commit message:

 Fix: remove system files from Bioconductor repo (Bioconductor/Contributions#4054)
Package: RNAshapeQC
Commit: 2f85b6c2b7bd4b3d52116f28482d664f3a3e8541
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-30 10:42:18 -0600
Commit message:

 Fix: remove system files from Bioconductor repo (Bioconductor/Contributions#4054)
Package: carnation
Commit: e7954aebc6c9390fdd09300b63519fa9a40dfad3
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2026-01-30 10:48:44 -0500
Commit message:

 Merge pull request #24 from NICHD-BSPC/suggest_pkgs

- Add pkgs to Suggests
Package: carnation
Commit: 846245588ad8cec533b99d19642f9f4be4a1c6b9
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-30 10:34:08 -0500
Commit message:

 updt NEWS
Package: carnation
Commit: db6c26dab556c8bbd2961dbd667c679f260f50d7
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-30 10:30:05 -0500
Commit message:

 version bump
Package: carnation
Commit: 7695799634e66042d7b6c9aed0195c677887eff7
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-30 10:29:51 -0500
Commit message:

 add pkgs to Suggests fr bioc build errors
Package: fourSynergy
Commit: dd8511dd006036232b82727d5afa7c5dc037e6d3
Author: swind <swind@uni-muenster.de>
Date: 2026-01-30 15:39:16 +0100
Commit message:

 raise version
Package: fourSynergy
Commit: 156c043f74d87f9961f1b7ab0c8dfa7d7baf192e
Author: swind <swind@uni-muenster.de>
Date: 2026-01-30 14:57:09 +0100
Commit message:

 implement getters and setters
Package: MetaboAnnotatoR
Commit: 946fba5d9c5c11334a4dbfab7eda06ec573e9b97
Author: Gomes Da Graca <ggomesda@ic.ac.uk>
Date: 2026-01-30 12:08:13 +0000
Commit message:

 new version bump
Package: MetaboAnnotatoR
Commit: 2024629f535e663c9e15f115f6edb3bdd961960e
Author: Gomes Da Graca <ggomesda@ic.ac.uk>
Date: 2026-01-30 12:06:26 +0000
Commit message:

 citation with correct enconding
Package: BioMartGOGeneSets
Commit: 56dc0d7450e8fb8c9c491be96469a48d3c058c9f
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 17:19:36 +0800
Commit message:

 change email address
Package: UniProtKeywords
Commit: 6dbbd306b50f28dd64b11c2f53aa7cf490685079
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 17:17:23 +0800
Commit message:

 change email address
Package: GeneSummary
Commit: a86967afaa3d88a1e37731ce92f43690c0332a33
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 17:07:22 +0800
Commit message:

 change email address
Package: cola
Commit: 0cbc999679ecf082617a60ed089fb54e532b3ee5
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 17:04:48 +0800
Commit message:

 change email address
Package: BioCartaImage
Commit: 19fc97f926bdc89fb20068e9ad70dfdc438b94b2
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 17:02:14 +0800
Commit message:

 change email address
Package: simplifyEnrichment
Commit: 9ef3f705791b51dc984bfb5f45cfc9b45dc37906
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 16:59:32 +0800
Commit message:

 change email address
Package: InteractiveComplexHeatmap
Commit: 8b617e72415fb23a0ced8ec1c91d21f04e042fc5
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 16:56:11 +0800
Commit message:

 change email address
Package: InteractiveComplexHeatmap
Commit: ad88747652baf53fa0c4e5929096826bd0b1b5e6
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 15:31:07 +0100
Commit message:

 update website
Package: rGREAT
Commit: a1cdd15e661b10c45aa09d0440f9e0772ee86018
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 16:47:42 +0800
Commit message:

 change email address
Package: simona
Commit: ed86d29c19b734bd72898218f9fd32eb6cae4a2b
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:46:40 +0800
Commit message:

 update email address
Package: gtrellis
Commit: d0e2aeef40502d0ac9e65adec3602397ed1b6d41
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:38:16 +0800
Commit message:

 change email address
Package: gtrellis
Commit: 0a07569e93704098fa875630362b189d08fd28cd
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 13:40:04 +0100
Commit message:

 version bump
Package: gtrellis
Commit: 95177bdf7f990705ba910159c0e7d4967e8678e9
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 13:39:30 +0100
Commit message:

 Merge branch 'devel' of git.bioconductor.org:packages/gtrellis into devel
Package: gtrellis
Commit: 3a7b92640482f5e33bb7eb291568490bf61a53b4
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 13:38:58 +0100
Commit message:

 update website
Package: HilbertCurve
Commit: 74fb1e2842347bbdc347c799f2ad51c80a540705
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:35:00 +0800
Commit message:

 change email address
Package: EnrichedHeatmap
Commit: 986bf0c739409c17b807db08b0917e26b8d4f7eb
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:30:36 +0800
Commit message:

 update email address
Package: EnrichedHeatmap
Commit: 9fefd54ec0a95fc6671db868edfb1703b7f321b1
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 13:07:50 +0100
Commit message:

 version bump
Package: EnrichedHeatmap
Commit: 8a9c1a6d8398bcecdb0938a0f3289d6c35e68e65
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2024-02-27 13:07:00 +0100
Commit message:

 update website
Package: ComplexHeatmap
Commit: 28b5474b5488d8a2449528cea28b0ab4b78200e3
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:25:02 +0800
Commit message:

 update email address
Package: ComplexHeatmap
Commit: dea9f1dc4c8acb6e0c24ebe33fee692b86cec0a4
Author: Zuguang Gu <jokergoo@gmail.com>
Date: 2026-01-30 14:23:08 +0800
Commit message:

 change email address
Package: OAtools
Commit: 62bebd4882deb5248a84069395c10263303acd34
Author: Aidan Shea <aidantshea@gmail.com>
Date: 2026-01-29 17:05:47 -0800
Commit message:

 docs: 0.99.7 snapshot for package documentation

Generally, brings the documentation up to date with current features
in preparation for the in-depth Bioconductor review process. Also
makes the following minor changes:
- depends on R 4.6 (devel version)
- adds DataImport to BiocViews
- updates badges in README
Package: RNAshapeQC
Commit: fe886edd9ee85bf16649f600ed87b941e1cad6d1
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-29 19:10:38 -0600
Commit message:

 Version bump to 0.99.2 (trigger rebuild)
Package: SpaNorm
Commit: 81ee46f8be0f9de074c32fe21b1b9781107d2d18
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2026-01-21 15:20:03 +1000
Commit message:

 bug fix in gpu function and using stable tf function
Package: SpaNorm
Commit: 8a503e343f55dca39d591884c84d779900179998
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2026-01-21 15:19:34 +1000
Commit message:

 added unit tests for gpu functions
Package: SpaNorm
Commit: 16564f89b9500d3f9329b149eada0cbf534ad260
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-13 00:50:23 +0000
Commit message:

 bug fix in tensor to matrix conversion
Package: SpaNorm
Commit: 0c2c7453d219199a908aeadda11d3b1c8e87dc9d
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-13 00:26:56 +0000
Commit message:

 auto-select backend based on object
Package: SpaNorm
Commit: 5eed7f7cf7541cf4d49164b35e5e3f9d57577400
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-12 14:57:58 +0000
Commit message:

 tensorflow compatible functions added to fit the NB model
Package: SpaNorm
Commit: 5231d7ac25da1d492e4e727506c4e7a8a7eb8dbf
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-12 02:20:08 +0000
Commit message:

 Support Seurat objects
Package: SpaNorm
Commit: 0384c09a5081bae6fa75c471e66bd121a666caa6
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-12 00:06:11 +0000
Commit message:

 Changed GPU backend to use tensorflow
Package: SpaNorm
Commit: c145d6a63b86466ee303836ed3d46c56f08ab03f
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2026-01-09 00:37:51 +0000
Commit message:

 add GPU matrix
Package: SpaNorm
Commit: b0603afd9d60280dab3aa1fb0b2ce0f09574fcd1
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-18 16:39:58 +1000
Commit message:

 Allow users to select backend for computation
Package: SpaNorm
Commit: cb927c4e09c9034b3ce7b48f7632f29409a39a74
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-09 20:22:26 +1000
Commit message:

 bugfix for GPU check
Package: SpaNorm
Commit: 9ca294ad016746f6a2ea990df086f53584edb821
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-09 19:38:20 +1000
Commit message:

 revert from vclMatrix to gpuMatrix for memory efficiency
Package: SpaNorm
Commit: fdaaab9860f2e512a40f492ed27f5ff617d984cc
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-09 13:25:18 +1000
Commit message:

 move is.spanorm argument to fitSpanormNB to allow acces to the IWLS algorithm
Package: SpaNorm
Commit: e885764e32d2f6a18b7427828310f31e32b7d68e
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-06 16:12:21 +1000
Commit message:

 updated GPU matrix and vector creation functions to reflect native R behavior
Package: SpaNorm
Commit: 5e2e96284bc45676d8ca74956ea952733c6edf24
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-04 16:59:30 +1000
Commit message:

 In-memory GPU computations implemented
Package: SpaNorm
Commit: 122c4874672defe50ff18b11b91ebd27d438e4c3
Author: dbhuva <d.bhuva@uq.edu.au>
Date: 2025-06-04 10:32:14 +1000
Commit message:

 Added GPU compatibility using gpuR
Package: SpaNorm
Commit: 8d6cd665ba28436bd3f7544ad7e0d4e8699f32c9
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-15 15:15:06 +1000
Commit message:

 Update lambda.a default value
Package: SpaNorm
Commit: eb7d63aa903785d7561b2d3dd2237538888e4167
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-15 11:18:55 +1000
Commit message:

 Changed default regularisation parameters to be the same for biology and LS
Package: SpaNorm
Commit: fa510fb0b9123c04bd29ec89965d8673526c2146
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-13 13:10:07 +1000
Commit message:

 Added support for separate regularisation parameters for biology and library size. Also ensures batch is not regularised.
Package: SpaNorm
Commit: ec3b0f3a3615896c1e8334ca68a57bd39073824b
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-13 10:18:02 +1000
Commit message:

 Added vignette example for SpaNormPCA
Package: SpaNorm
Commit: d9ccc6f392e92742fc347f07432c6adcdf379dcd
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-13 10:17:48 +1000
Commit message:

 Scale coordinates to the range [0, 1] for each axis and then centers the coordinates around the origin.
Package: SpaNorm
Commit: 749dedabc9407244106b0d4c3c771de739ebd311
Author: bhuvad <d.bhuva@uq.edu.au>
Date: 2025-05-13 10:16:03 +1000
Commit message:

 Merge remote-tracking branch 'upstream/devel'
Package: SpaNorm
Commit: 832d534172299a5a1fc0db3f6f99ad9f4bcf9d45
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-20 01:14:26 +0000
Commit message:

 bug fix for numerical errors
Package: SpaNorm
Commit: 12387d713c843bc927bf4ed2b1013c9352b930cf
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-19 06:27:50 +0000
Commit message:

 bugfix in deviance residual calculation
Package: SpaNorm
Commit: 8c5526691163ff3647e68df223e5db815051ca4b
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-19 04:25:36 +0000
Commit message:

 store null model in object as well
Package: SpaNorm
Commit: 414b4c24011cbf423d487ae3ad2f738de1d7f19b
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 13:31:44 +0000
Commit message:

 correct pearson residual calculation
Package: SpaNorm
Commit: c1ecb19053fd48ff9095e1a805a707e016902c0f
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 12:39:44 +0000
Commit message:

 Added missing dependencies
Package: SpaNorm
Commit: 03c5072e669fc6c341a02e3fcb81606613383423
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 12:03:13 +0000
Commit message:

 fix vignette bug
Package: SpaNorm
Commit: 8724534d3144131b7f10f3086b16e95483ef39db
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 10:13:38 +0000
Commit message:

 Added GLM-PCA approximation
Package: SpaNorm
Commit: cb03791c20d07455b81629fa956fcd4b0c36258c
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 07:14:12 +0000
Commit message:

 self contained check of SVG results
Package: SpaNorm
Commit: b0e3bfe86af4f9302686a4d40cfcef0f3b01cb92
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 07:11:00 +0000
Commit message:

 add getter for SVG results
Package: SpaNorm
Commit: d39b730ffbdcfb207197c1ed7bf3b601625f216a
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-18 06:56:13 +0000
Commit message:

 add getter to retrieve and check SpaNorm model
Package: SpaNorm
Commit: df351e731802899152c017e86118985355759f20
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-13 02:42:43 +0000
Commit message:

 updated news, print out msg in SVG chunk of the vignette
Package: SpaNorm
Commit: 6df28e963dd4bca6b08b17968d36bedc744288dd
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-13 02:28:08 +0000
Commit message:

 Updated plotting code
Package: SpaNorm
Commit: ce8020a8ce862ad2b45f79c22b839f969ebf9b9e
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-12 11:48:17 +0000
Commit message:

 remove buggy section in vignette
Package: SpaNorm
Commit: 0086f78e1d7fa2f3f133bd87bbb0d47660ba41ca
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-12 09:34:35 +0000
Commit message:

 bug fix in vignette
Package: SpaNorm
Commit: f000fcb977a3220dff6cb2731d03e29840f3a187
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-12 08:32:11 +0000
Commit message:

 Allow separate df.tps specification for biology and library size
Package: SpaNorm
Commit: df69be58f59c215030fe0d0f4af154b71ef17519
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-10 02:57:49 +0000
Commit message:

 Threshold negative F-statistics
Package: SpaNorm
Commit: b3bf352bda51d8fd30eecef5ce1f06a2232bb534
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-09 18:11:53 +1030
Commit message:

 added SVG calling and covariate plotting functions to the documentation
Package: SpaNorm
Commit: 8b1f7b51a019cc1ec7a9d8c1b14dd9e56e21cf7c
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-09 18:11:26 +1030
Commit message:

 bug fix in checking TPS df
Package: SpaNorm
Commit: 4338f4030f065689c4b97106f4352b609b7bcc13
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-09 18:11:07 +1030
Commit message:

 Added function topSVGs to list the results.
Package: SpaNorm
Commit: 1892ceb568246c6ceada54c43afce39ec8c16698
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-07 18:25:14 +1030
Commit message:

 Added SVG calling functions and tests
Package: SpaNorm
Commit: 2eebfedcdf53d5e5f253cac9b8496b976c6b742a
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-07 00:56:25 +1030
Commit message:

 removed stringent check to enable flexibility of SpaNorm object
Package: SpaNorm
Commit: d70b9bfabb78d7b3aff4decc13fbe45f0834ddee
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-02-06 23:54:11 +1030
Commit message:

 updated SpaNorm object to store cell sampling information
Package: SpaNorm
Commit: 04a8dd498ecacfeb8f99e3c2b25684912e25a51d
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-06 12:40:43 +1030
Commit message:

 spline construction for rectangular tissues depends on aspect ratio
Package: SpaNorm
Commit: d5848abdfe148c35e8860ab5b0cd830dc71367cc
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-06 12:39:09 +1030
Commit message:

 imporved checks for plot spatial
Package: SpaNorm
Commit: 7ae3cd530e1a2d3a3f908c8ce8192a408af7e1b3
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-03 18:08:04 +1030
Commit message:

 added documentation and exported
Package: SpaNorm
Commit: f32bdd6a9b71a0aeda72c0dcca552606fef03bb3
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-03 17:56:17 +1030
Commit message:

 added function to plot fit
Package: SpaNorm
Commit: db4b714372e6215fdcd138bb27fa542f92b04369
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-03 16:49:42 +1030
Commit message:

 added basic checks
Package: SpaNorm
Commit: 7dc23f84c49b2e3c8fc47c97275299b7d01a1da0
Author: Dharmesh Bhuva <dharmesh.bhuva@adelaide.edu.au>
Date: 2025-01-03 16:49:28 +1030
Commit message:

 handle edge case where only one covariate is selected
Package: cellmig
Commit: 6d4aa1906b0e7331221280305804309df96cd7d7
Author: snaketron <simo.kitanovski@proton.me>
Date: 2026-01-30 01:23:12 +0100
Commit message:

 modified tests
Package: cellmig
Commit: 663bd1e67d0d91903d86db0428c245f27f8e8a28
Author: snaketron <simo.kitanovski@proton.me>
Date: 2026-01-30 01:04:39 +0100
Commit message:

 analysis version
Package: cellmig
Commit: feba02d9e541735e500428336357b53d321abd53
Author: snaketron <snaketron@users.noreply.github.com>
Date: 2026-01-27 18:01:43 +0100
Commit message:

 Merge pull request #1 from snaketron/devel

Devel
Package: RNAshapeQC
Commit: fde609b1cd59fd2129247dd5f89b0a6933dd94a9
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-29 18:11:36 -0600
Commit message:

 Version bump to 0.99.1
Package: RNAshapeQC
Commit: b48362fc8430ec4ab72e47dbcbe77829b6417870
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-29 14:06:11 -0600
Commit message:

 Fix: remove local and OS-specific files (Bioconductor/Contributions#4054)
Package: RNAshapeQC
Commit: 38e823e44104fc402a7b97a03d3fe9c67135b387
Author: Miyeon Yeon <sqr.yeon@gmail.com>
Date: 2026-01-29 13:53:48 -0600
Commit message:

 Fix: remove local and OS-specific files (Bioconductor/Contributions#4054)
Package: glycoTraitR
Commit: 9be6f65fe839feaa65e0c8590d6cba58d7194a9e
Author: bingyuan-zhang <zhang.bingyuan.w8@f.mail.nagoya-u.ac.jp>
Date: 2026-01-30 07:28:43 +0900
Commit message:

 Version updated
Package: glycoTraitR
Commit: c6595d1a4b589031776c3c7c278ab95673af85cb
Author: bingyuan-zhang <zhang.bingyuan.w8@f.mail.nagoya-u.ac.jp>
Date: 2026-01-30 06:48:28 +0900
Commit message:

 update linnk
Package: glycoTraitR
Commit: 858c33821318e808a899df22dd465757588033b4
Author: bingyuan-zhang <84696940+bingyuan-zhang@users.noreply.github.com>
Date: 2026-01-30 06:33:42 +0900
Commit message:

 Merge pull request #2 from lgatto/patch-1

Update link
Package: glycoTraitR
Commit: d35b692cec9cf40e3a8f1dbd00a8f9f958c47ad4
Author: bingyuan-zhang <zhang.bingyuan.w8@f.mail.nagoya-u.ac.jp>
Date: 2026-01-30 00:17:50 +0900
Commit message:

 1. update test files
2. change code style
3. add quick_start.rmd
Package: glycoTraitR
Commit: bc3fcd1f85fd99c334d14dc280497c7e4fedb18d
Author: bingyuan-zhang <zhang.bingyuan.w8@f.mail.nagoya-u.ac.jp>
Date: 2026-01-29 17:25:15 +0900
Commit message:

 1. Improve vignette and documentation
2. Update and add unit tests
Package: glycoTraitR
Commit: d6a99a999c761278bf7d454b0a413dc7bc57c7e6
Author: Laurent Gatto <lgatto@protonmail.ch>
Date: 2026-01-19 20:59:43 +0100
Commit message:

 Update link
Package: OAtools
Commit: 2fa45f359e9eaffc1812df0ee526429641161a90
Author: Aidan Shea <aidantshea@gmail.com>
Date: 2026-01-29 13:53:08 -0800
Commit message:

 docs: outdated example code in README

Brings some outdated example code in the package README up to date
with the vignette.
Package: signatureSearch
Commit: 466b4878f97ec6f8fe8e1a5b1ab1858d4e7666ed
Author: brendangongol <bgong001@ucr.edu>
Date: 2026-01-29 12:42:11 -0800
Commit message:

 Addressed warning messages
Package: MetaboAnnotatoR
Commit: 6588f63bf55c48ccbfc4822e87f8933a34674325
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-29 23:43:36 +0200
Commit message:

 example error corrected
Package: MetaboAnnotatoR
Commit: 37cb65f3d4fe45fe7c367fb4911c6e17b1711da2
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-29 23:31:14 +0200
Commit message:

 example from msdata added
Package: MetaboAnnotatoR
Commit: 889ba5084e1cfc08d08a4abb3ae13d91255ae64d
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-29 23:30:19 +0200
Commit message:

 new version bump
Package: carnation
Commit: 0c658f30cb5257f412a05c9d642b8758bd561c4d
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2026-01-29 15:32:56 -0500
Commit message:

 Merge pull request #23 from NICHD-BSPC/devel

Merge 'devel' into 'main'
Package: carnation
Commit: b965d6a0ef6134e523ad41a83af998e12dbc8cb0
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2026-01-29 15:09:55 -0500
Commit message:

 Merge pull request #13 from NICHD-BSPC/tests

- Added testthat tests
- Addressed comments from Bioconductor review
Package: carnation
Commit: 6797da4a27f156f763f2e85a662ee916094fb2bc
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 21:40:40 -0500
Commit message:

 bump R dependency to >= 4.6.0 fr bioc
Package: carnation
Commit: e379742ae54ca7accd8d6b773ae24ead9e67ad93
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 21:21:23 -0500
Commit message:

 version bump
Package: carnation
Commit: 55dbcbd529ec3d2e26b93a23ddd3d71df2765972
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 16:10:22 -0500
Commit message:

 updt NEWS
Package: carnation
Commit: 00db77027f34686942af9d77b6a895847f58ba52
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 16:10:05 -0500
Commit message:

 tweak pkg help
Package: carnation
Commit: a8c80bf9abc13f94b8a120f55fc70c9c2e28f3d6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 15:54:25 -0500
Commit message:

 fix func docs
Package: carnation
Commit: 4394fe1455692ea581bc3184fdd154fd1173d70f
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 15:49:23 -0500
Commit message:

 updt md files
Package: carnation
Commit: e623eaaee55879b278aaa08e472dbd7d1befeabb
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 15:48:39 -0500
Commit message:

 fix typo
Package: carnation
Commit: 6308412d2e572ef7f71949a1dbd7db74eac7f482
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 15:17:47 -0500
Commit message:

 use mock res in function examples
Package: carnation
Commit: 8005645dc163cce3fae4448c337e7a4385b4c5a8
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 15:17:06 -0500
Commit message:

 set dlmod examples to examplesIf interactive()
Package: carnation
Commit: d0e59cbb8e15d9a337aefebb42f71c48697769e5
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 10:09:24 -0500
Commit message:

 save R cmd check dir to artifact
Package: carnation
Commit: dfbffe9f7217f30631ae236b215ecc66a11f1878
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-28 09:51:17 -0500
Commit message:

 export R CMD check log as artifact
Package: carnation
Commit: e338f58262cc8432783ad87f53b4579fc4a10e21
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 16:12:31 -0500
Commit message:

 set R version to 4.4
Package: carnation
Commit: f35785b7d8392ad185385c7472da7b4ac2c9f933
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 16:06:49 -0500
Commit message:

 revert actions
Package: carnation
Commit: 076540bd60518a16ffa48b96a66dec5342a687de
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 16:02:45 -0500
Commit message:

 rm RFLOMICS frm vignette
Package: carnation
Commit: 4228ec48173456a0f31e9ffb063015cb284532de
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 15:55:52 -0500
Commit message:

 fix action
Package: carnation
Commit: 9fbf711401505f1d8ad4a650131e094bbf79e1e8
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 15:33:24 -0500
Commit message:

 bump R version to 4.6.0
Package: carnation
Commit: aa564c12b2fad18be21bd03f06333f26b8c2200f
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 15:31:45 -0500
Commit message:

 override DESCRIPTION to use R 4.3 fr tests
Package: carnation
Commit: ee2a0cc1601449ab48138bd15b9b6509e9822da2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 14:59:53 -0500
Commit message:

 clean up
Package: carnation
Commit: 24ba68db9e97f87e5c7249853c1ddcd139e108ba
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 14:59:07 -0500
Commit message:

 add tests fr save & load data modules
Package: carnation
Commit: 76a1635e6ca000c458797cfabf9dbe8b8767d9e8
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 14:48:17 -0500
Commit message:

 repl is.ggplot w is_ggplot
Package: carnation
Commit: 98fede7473b1f6233c8c7224cedcc69b9cd86b5d
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-23 14:47:47 -0500
Commit message:

 add func enrich tests
Package: carnation
Commit: 21bba61aab517551cff1386e14e5006cd2e94c86
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 15:56:15 -0500
Commit message:

 add pattern plt tests
Package: carnation
Commit: 3520c4403db76093234d9257bb9425bd327b5e72
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 15:36:57 -0500
Commit message:

 add biocstyle to pkgdown reqs
Package: carnation
Commit: 6ee434584aaed08598686b65bc8146e43f6de280
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 15:28:16 -0500
Commit message:

 add tests fr scatterplt & upset
Package: carnation
Commit: 4dfb7eaa2907325a7df2b62d0e63b64a63ec6350
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 14:28:51 -0500
Commit message:

 add BiocStyle to Suggests
Package: carnation
Commit: 201456a05b333102347695d7f73706055ff00a95
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 14:21:50 -0500
Commit message:

 add biocstyle to reqs
Package: carnation
Commit: 1f7f6a4ed7a9e9cd9de497af580a4fb7b896b582
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 14:15:48 -0500
Commit message:

 updt vignette
Package: carnation
Commit: bc1f48dd7893ceeafdb2c35fdc15633c3fbeb78d
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 14:11:05 -0500
Commit message:

 updt install instructs in README
Package: carnation
Commit: 76f27ef485dbad13220b2238ed4a97d8534114cb
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 10:24:18 -0500
Commit message:

 add fnd role, updt roxygen version
Package: carnation
Commit: e232ba260acfc520573936e8a28027c99dc3dcf2
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 10:23:37 -0500
Commit message:

 add pkg help
Package: carnation
Commit: 4e2cb3fcd4cf35aa13c0cd929cb9e8d592a24eb3
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-22 10:23:10 -0500
Commit message:

 updt man pages
Package: carnation
Commit: 3029f32d67b7e687331049a041c47d8271a90acd
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-21 16:30:21 -0500
Commit message:

 pin backbone
Package: carnation
Commit: 08a82fce99e1bd2075912f0b4e3cee7786779d7e
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-21 16:24:21 -0500
Commit message:

 add genetonic back to reqs
Package: carnation
Commit: d4cf45951f72898f86bcf0cda2759227c4d7664a
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-21 16:10:30 -0500
Commit message:

 get runtimes for build & check
Package: carnation
Commit: 594fb27b29117a10da025323b8ca6ad4dcb8c17f
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2026-01-20 12:29:52 -0500
Commit message:

 Merge remote-tracking branch 'origin/main' into tests
Package: carnation
Commit: e2980d047bd800e96bd0caabd426be11a9421851
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 16:43:40 -0500
Commit message:

 updt gene plt tests
Package: carnation
Commit: 792f7b49a973eb459136efa3a03fbd69815d7476
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 15:28:26 -0500
Commit message:

 tweak mock_dds, n_samples
Package: carnation
Commit: 728c4fe2f3d3c2d9706bc90dc0c2d8e0cf505650
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 14:30:31 -0500
Commit message:

 rm unused test
Package: carnation
Commit: 9e9feaa275f1e6c3603b858677ab7a4c68857fab
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 14:30:09 -0500
Commit message:

 rm repeated code
Package: carnation
Commit: 912501f2f11eeffbd241cf1bbaf378d82b883974
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 13:50:33 -0500
Commit message:

 fix incorrectly named test helper
Package: carnation
Commit: d5d7415856e07763e3eeea8c4b67b0bf8590e074
Author: Apratim Mitra <16709900+mitraak@users.noreply.github.com>
Date: 2025-11-24 12:21:11 -0500
Commit message:

 Merge branch 'devel' into tests
Package: carnation
Commit: 1239e1412dcb2725f3f30e7349535815a17d5029
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-24 10:33:48 -0500
Commit message:

 enable tests fr devel
Package: carnation
Commit: 6622c464643be2a92bb1648b5226ffe401a52d06
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-22 11:22:14 -0500
Commit message:

 rm library(testthat) calls
Package: carnation
Commit: 5f13f8eba82d572603e3caf675ffffc73370bd44
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-22 11:21:55 -0500
Commit message:

 rename test-functions.R as helper
Package: carnation
Commit: e491906b323bab0d257db7328eea5ca36e8e78c1
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-20 10:25:23 -0500
Commit message:

 pin R version for actions
Package: carnation
Commit: 19d34fb6c5991629ae84a47069721612be199117
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-17 12:14:20 -0500
Commit message:

 updt pinned reqs
Package: carnation
Commit: c385604c23a3edda9a6607278d106cffa8734c0c
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-17 12:01:25 -0500
Commit message:

 add testthat to reqs
Package: carnation
Commit: 39c96d211d691340ee2d02bfa02a9c321762fc81
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-16 13:12:04 -0500
Commit message:

 add id to ma plot collapse panel
Package: carnation
Commit: 3137172f57a2e0232e0b414dd2f83f920031a5e3
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-16 13:11:19 -0500
Commit message:

 only show desc if data type is Existing
Package: carnation
Commit: fddbe316b8c0dea3161571cd6857cf8716350558
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-11-16 13:10:58 -0500
Commit message:

 add inputId to dropdownButtons
Package: carnation
Commit: add8ab5bb839fb14410076699cd9e6cae0f12829
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-08 15:53:03 -0400
Commit message:

 add module and func tests
Package: carnation
Commit: 24fb9d94576dc1db14c6053ce5f2d8ea853d470a
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 15:44:18 -0400
Commit message:

 fix R CMD check args
Package: carnation
Commit: 8808e1d9cd74f472a065e3a4595b0903963af542
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 15:32:12 -0400
Commit message:

 add missing arg help
Package: carnation
Commit: f8e9393fa8ad4f03fceb24dde9ad9004a01ae220
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 15:31:46 -0400
Commit message:

 add pkgdown-reqs to rbuildignore
Package: carnation
Commit: 07df94cd3bc2ac126c1f260f642d118c1d69ae89
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 14:50:57 -0400
Commit message:

 pin backbone<3, ggplot<4, enable genetonic fr pkgdown
Package: carnation
Commit: d7ae0e0a56e850a2a8bb3859d194c274f769b4a6
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 14:47:41 -0400
Commit message:

 add conda setup to pkgdown action
Package: carnation
Commit: 989cef99fa6196fe30d1f227d8d66f983a6ceb46
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 14:47:22 -0400
Commit message:

 revert pinned reqs
Package: carnation
Commit: 2e450a075c745d8f8b3312782f4039ec649bd6f1
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 14:39:03 -0400
Commit message:

 updt pinned reqs
Package: carnation
Commit: 3e7747d01c5e821d690fa22b6d34feee05836daa
Author: Apratim Mitra <apratim.mitra@nih.gov>
Date: 2025-10-01 14:37:32 -0400
Commit message:

 add pkgdown action w conda
Package: MSstatsShiny
Commit: 4f319bc4f16701fe06e8a3ffc2f8db672152d78a
Author: tonywu1999 <anthonywu92@gmail.com>
Date: 2026-01-29 11:51:56 -0500
Commit message:

 Bump version to 1.13.1

Updated package version from 1.13.0 to 1.13.1.
Package: MSstatsShiny
Commit: e8951f96c808b9d518f6fc2634e555dfc952e41d
Author: Rudhik Shah <45579871+Rudhik1904@users.noreply.github.com>
Date: 2026-01-28 14:53:46 -0600
Commit message:

 feat(spectronaut-converter): Enable user to upload large datasets (#144)
Package: fourSynergy
Commit: b1df699adc3d5e246e7b76b0c61ddeae8eb2659c
Author: swind <swind@uni-muenster.de>
Date: 2026-01-29 17:17:04 +0100
Commit message:

 update height of highlight
Package: fourSynergy
Commit: 566948208513cd273ed946696e554c30a8d67987
Author: swind <swind@uni-muenster.de>
Date: 2026-01-29 17:16:48 +0100
Commit message:

 change structure of fcts and update docu
Package: fourSynergy
Commit: 74c73c77b417bef9575d3ed793e07fd37c9216c2
Author: swind <swind@uni-muenster.de>
Date: 2026-01-29 17:15:32 +0100
Commit message:

 raise version, minimize imports
Package: fourSynergy
Commit: 1dbca07fe754a0ed565eccde592b623d5c4a8ffd
Author: swind <swind@uni-muenster.de>
Date: 2026-01-28 10:51:05 +0100
Commit message:

 reference to benchmakring
Package: fourSynergy
Commit: 080d6f730c3095305e8ba7beafa872c4c357ba46
Author: swind <swind@uni-muenster.de>
Date: 2026-01-28 10:50:51 +0100
Commit message:

 update docu
Package: fourSynergy
Commit: 7827e2feb457ba540d643e5ad6ff3599e57bad41
Author: swind <swind@uni-muenster.de>
Date: 2026-01-28 10:50:18 +0100
Commit message:

 change name to fourSynergy class
Package: fourSynergy
Commit: 08ab022ec2f23dd08f897ce4ac91c1fe00d467b3
Author: swind <swind@uni-muenster.de>
Date: 2026-01-28 10:50:01 +0100
Commit message:

 adjusting imports and links
Package: fourSynergy
Commit: 67890c37dc1602b685f7e1330d3b806b415312b4
Author: swind <swind@uni-muenster.de>
Date: 2026-01-15 16:00:30 +0100
Commit message:

 change ylab
Package: fourSynergy
Commit: 517ac4f68ca2b67341030f215e7a384af16cb65e
Author: swind <swind@uni-muenster.de>
Date: 2026-01-09 09:51:38 +0100
Commit message:

 track plot changes version raise
Package: fourSynergy
Commit: 8d192849b1bd9c10f738940d0380eea259388cb3
Author: swind <swind@uni-muenster.de>
Date: 2026-01-09 09:18:09 +0100
Commit message:

 add dataframe conversion to make hihlighting working
Package: fourSynergy
Commit: 5ee1ed807e05edaa66ef781afde7eb6d0e4db748
Author: swind <swind@uni-muenster.de>
Date: 2026-01-02 13:58:33 +0100
Commit message:

 raise version, update docu
Package: fourSynergy
Commit: 200f7fe794cf371948d7b6f896f4159e53a80597
Author: swind <swind@uni-muenster.de>
Date: 2026-01-02 12:30:46 +0100
Commit message:

 update news
Package: fourSynergy
Commit: 92d8864e3bdd9c9ddf19d5b064f1db0a0acef3aa
Author: swind <swind@uni-muenster.de>
Date: 2026-01-02 12:23:31 +0100
Commit message:

 update docu
Package: fourSynergy
Commit: 994c16176247136d37192ce5ad828986828e2b32
Author: swind <swind@uni-muenster.de>
Date: 2026-01-02 12:04:12 +0100
Commit message:

 clean up karyos
Package: fourSynergy
Commit: 52f0746ba2622a513587302afd2f2dea8c12ef75
Author: swind <swind@uni-muenster.de>
Date: 2026-01-02 11:48:33 +0100
Commit message:

 changes in plotgenes
Package: fourSynergy
Commit: 88a0834455eff41ca5edff9db596e3ac6b82a60d
Author: swind <swind@uni-muenster.de>
Date: 2025-12-19 10:19:52 +0100
Commit message:

 dev.off in karyo
Package: MetaboAnnotatoR
Commit: 7e321ad1b243b53452bb121ddea702b0579062c0
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-29 17:05:26 +0200
Commit message:

 formatting corrections
Package: MetaboAnnotatoR
Commit: 98b5137c776b43231a1963eb6e477459a0f411f9
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-29 17:05:04 +0200
Commit message:

 new version bump
Package: lfa
Commit: 21a47b5c330ea4d6d70c2b545e60370039b50466
Author: Alejandro Ochoa Garcia <alexviiiag@gmail.com>
Date: 2026-01-29 10:44:55 -0500
Commit message:

 Function `sHWE` for `BEDMatrix` inputs now deletes temporary files after they are no longer needed
Package: OmnipathR
Commit: 4c56371a806471d6dbd0212d45ab5931026eb10b
Author: deeenes <turei.denes@gmail.com>
Date: 2026-01-29 16:23:53 +0100
Commit message:

 `omnipath` client: updated argument reference and synonyms
Package: TraianProt
Commit: fc1a694aed2f8bc9b192332e25c036a3298a0104
Author: Samuel <123367287+SamueldelaCamaraFuentes@users.noreply.github.com>
Date: 2026-01-29 10:42:08 +0100
Commit message:

 Delete TraianProt.Rproj
Package: TraianProt
Commit: baa007472c66c2638449379e1cb452f7286c3e3c
Author: Samuel <123367287+SamueldelaCamaraFuentes@users.noreply.github.com>
Date: 2026-01-29 10:41:32 +0100
Commit message:

 Add files via upload
Package: TraianProt
Commit: b0398e8f84f1135f81c199717cfb1b75a88451e0
Author: Samuel <123367287+SamueldelaCamaraFuentes@users.noreply.github.com>
Date: 2026-01-29 10:40:28 +0100
Commit message:

 Add files via upload
Package: TraianProt
Commit: 3c3ed358b9a6a19ec36738ab89c8b88a0ab77b31
Author: Samuel <123367287+SamueldelaCamaraFuentes@users.noreply.github.com>
Date: 2026-01-27 16:33:45 +0100
Commit message:

 Fix typo in installation instructions for Shiny app
Package: QTLExperiment
Commit: 90eb51398f67d8e3bf0494740d14886f49c5043c
Author: dunstone-a <amelia.dunstone@gmail.com>
Date: 2026-01-29 17:32:33 +1100
Commit message:

 Remove matching feature ID check when IDs are unchanged
Package: SCArray.sat
Commit: b8e2cafb98d9650783ed9986b251c0d2d271475e
Author: Xiuwen Zheng <zhengxwen@gmail.com>
Date: 2026-01-29 00:02:14 -0600
Commit message:

 fix for Assay5
Package: MMUPHin
Commit: 9168f5a91373c21b1d03a7465c1784ac6f3ef2ca
Author: Siyuan Ma <syma.research@gmail.com>
Date: 2026-01-28 22:39:18 -0600
Commit message:

 version bump
Package: MMUPHin
Commit: 08c7131507916cb8142b75c56925a77b056b6a1b
Author: Siyuan Ma <syma.research@gmail.com>
Date: 2026-01-28 22:38:52 -0600
Commit message:

 Remove old test file
Package: MMUPHin
Commit: 96556b4d881741127fc9f7af9c75026f8c9daf66
Author: Siyuan Ma <syma.research@gmail.com>
Date: 2026-01-28 22:29:46 -0600
Commit message:

 versioning
Package: MMUPHin
Commit: fed879265ea4b8d4efa7be05955d17fa2226f40f
Author: Siyuan Ma <syma.research@gmail.com>
Date: 2026-01-28 22:29:08 -0600
Commit message:

 fix testthat bug
Package: BenchHub
Commit: f04f3d7040d991f872ae8d0d9e16ee962c1bd98e
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-28 12:06:40 +1100
Commit message:

 Merge branch 'devel' of https://github.com/SydneyBioX/BenchHub into devel
Package: BenchHub
Commit: b663b399e052a365ca7e8dd1bd6c021bd5183e8f
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-28 12:06:08 +1100
Commit message:

 Increment version.
Package: BenchHub
Commit: 87071a7ae9a59d3f5adbc6a82a930be6ddba7817
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 16:19:05 +1100
Commit message:

 update figure caption
Package: BenchHub
Commit: aa175866c5f6fc88d21119959181ffc03eb7f635
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 15:51:10 +1100
Commit message:

 Update README.md
Package: BenchHub
Commit: 6c86653cea5a9850a573ec59de89a63f7094267c
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 13:03:11 +1100
Commit message:

 Update v02_Evaluation_using_Trio.Rmd
Package: BenchHub
Commit: bdc5bcef0ac9bd0f33e68c21030daa11f3d45ce4
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 12:43:33 +1100
Commit message:

 Merge branch 'devel' of https://github.com/SydneyBioX/BenchHub into devel
Package: BenchHub
Commit: 850e03f3efdce51cb59e99e7ae3ea7fe90ecac75
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 12:43:31 +1100
Commit message:

 Update BenchmarkInsights.R
Package: BenchHub
Commit: 5f29c2180bd2dad1a330907c42939140168e00bd
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-27 11:51:37 +1100
Commit message:

 Merge branch 'devel' of https://github.com/SydneyBioX/BenchHub into devel
Package: BenchHub
Commit: c97a308874a293d3e5ab6f49fdd72b193cb7bad5
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-27 11:50:12 +1100
Commit message:

 - Added demonstration of read-only access to Google Sheet.
- Loading of example data now uses a temporary environment.
Package: BenchHub
Commit: 8baec4ace4d9228286a20ba537a1a5c1ce1021f4
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 11:04:46 +1100
Commit message:

 Update v03_intro_bmi.Rmd
Package: BenchHub
Commit: 35155ad56b5e30679646f097da5b36627bb8d178
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 10:44:16 +1100
Commit message:

 add caption
Package: BenchHub
Commit: d315ef081aa7907336ba70c8c1816b55fac8cc81
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 10:37:16 +1100
Commit message:

 add figure
Package: BenchHub
Commit: d35d5c57e02cbcc7658a7de73b7e673c384ecfd3
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 10:16:50 +1100
Commit message:

 Update v03_intro_bmi.Rmd
Package: BenchHub
Commit: 934cb644cecbe9a0e2f93ebbeebfdac47ece695e
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 10:13:03 +1100
Commit message:

 Update v04_uploading_a_Trio.rmd
Package: BenchHub
Commit: 17470ae86820aa693d75a81c290fed717fcbf94a
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-27 10:09:46 +1100
Commit message:

 Update v02_Evaluation_using_Trio.Rmd
Package: BenchHub
Commit: d3bfbd97895e12a3c56a2fc9286d99f7ebc945a0
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-23 10:30:31 +1100
Commit message:

 FIx typo in Upload Trio class in Vignettes
Package: BenchHub
Commit: 9b371ffda3d3f20cec5dc37033d218a7d3eae61d
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-23 10:20:12 +1100
Commit message:

 Add overview to Vignettes
Package: BenchHub
Commit: a462bcbfefa52a354b4b1dd95c75ad2ea394d323
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-23 10:18:19 +1100
Commit message:

 Merge branch 'devel' of https://github.com/SydneyBioX/BenchHub into devel
Package: BenchHub
Commit: dbac434e219a42954cadde28b6980434ad0b18ce
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-23 10:17:35 +1100
Commit message:

 Add overview to VIgnettes
Package: BenchHub
Commit: c8380c3a82024e66fff626808691a4c136fcb6e8
Author: Yue Cao <yue.cao@sydney.edu.au>
Date: 2026-01-21 23:56:27 +1100
Commit message:

 format the vignette table in readme
Package: BenchHub
Commit: 46a6373edc836979a2816f6c729a908757798a68
Author: Yue Cao <yue.cao@sydney.edu.au>
Date: 2026-01-21 23:54:41 +1100
Commit message:

 update readme
Package: BenchHub
Commit: f4fe2b243d40a7f6cbd5b4f41dace5ac46c6ba8a
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-21 11:16:36 +1100
Commit message:

 Test Vignette numbering
Package: BenchHub
Commit: 80955859f4a3d1dbec44d76f9a9dacf8c468647b
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-21 11:15:20 +1100
Commit message:

 Update Vignette
Package: BenchHub
Commit: eeba827e4d241b1801d57a1d125d7e9886e79de3
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-21 11:09:17 +1100
Commit message:

 Modify Vignettes numbers
Package: BenchHub
Commit: be5dd6836052d6a2e283a2f8f0f50e7f1eb040af
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-21 10:58:29 +1100
Commit message:

 Modify Vignettes numbers
Package: BenchHub
Commit: 28995d92d9652cf41b04e5a75ca43b8b1095fab6
Author: littlecabiria <71769896+littlecabiria@users.noreply.github.com>
Date: 2026-01-19 15:53:57 +1100
Commit message:

 fix the comment
Package: BenchHub
Commit: 6756355f8903df13974a450598866638bceddf36
Author: MarniTorkel <mtorkel@gmail.com>
Date: 2026-01-19 11:36:29 +1100
Commit message:

 Remove WIP
Package: BenchHub
Commit: 0f6320cac1854f4daa6bc0b9dc682123151ae2c0
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-16 15:55:05 +1100
Commit message:

 Corrected vapply expectation twice.
Package: BenchHub
Commit: fd2334669c814aa685355445e9ad002827b7a1e0
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-16 15:45:04 +1100
Commit message:

 Addressed NOTEs by CHECK and others by BiocCheck.
Package: BenchHub
Commit: ec01dda3ab82008c6a5b68d96d28e8d37c5f36ff
Author: Dario Strbenac <dario@maths.usyd.edu.au>
Date: 2026-01-15 16:45:20 +1100
Commit message:

 Data splitting random seed now has a default integer value.
Package: BenchHub
Commit: 87d9e0455ee7b044e8e2e415f2c925a2982e81f6
Author: Yue Cao <yue.cao@sydney.edu.au>
Date: 2026-01-14 23:17:29 +1100
Commit message:

 suppress warning in vignette 5
Package: BenchHub
Commit: 7f353c1b86870e4e0fdd00601a207cdd0433ec7f
Author: Yue Cao <yue.cao@sydney.edu.au>
Date: 2026-01-14 21:50:00 +1100
Commit message:

 update benchmarkstudy vignette and add helper printing function
Package: MetaboAnnotatoR
Commit: 54c98252333644e2e87e8df637e8df0962a88577
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 23:18:59 +0200
Commit message:

 citation added
Package: MetaboAnnotatoR
Commit: 18741f4b63ab45c638ad25b2456dd9c442b6db7a
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 23:17:29 +0200
Commit message:

 examples reworked
Package: MetaboAnnotatoR
Commit: 1da882f9bae266a00bd391ebfbf62f69c79cca4a
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 23:16:55 +0200
Commit message:

 examples reworked
Package: MetaboAnnotatoR
Commit: 642558ca1b4de5371f6a5b5067da24200b06b945
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 23:15:38 +0200
Commit message:

 new version bump
Package: qPLEXanalyzer
Commit: 799e3aca7ca8cd5fe9b437dce5d6a870ef1afebb
Author: AshKernow <ads2202cu@gmail.com>
Date: 2026-01-28 18:56:12 +0000
Commit message:

 Fix MSnbase package name
Package: gcatest
Commit: 24663f361277a2080da6d6cae1a48bd64087b989
Author: Alejandro Ochoa Garcia <alexviiiag@gmail.com>
Date: 2026-01-28 13:23:46 -0500
Commit message:

 Updated vignette from old Sweave to modern R markdown
Package: lfa
Commit: 68c91d6abf9a2a68949ee90ce8c75f5366778335
Author: Alejandro Ochoa Garcia <alexviiiag@gmail.com>
Date: 2026-01-28 13:06:11 -0500
Commit message:

 Updated vignette from old Sweave to modern R markdown.
Package: StatescopeR
Commit: 4437c8aaac815a8618970ac4211e842af81bf733
Author: MSteketee <m.f.b.steketee@amsterdamumc.nl>
Date: 2026-01-28 18:16:36 +0100
Commit message:

 Adjusted vignette wording based on thesis supervisors
Package: lfa
Commit: 2522d81d203ae8886d5c6a651481d9baec15c659
Author: Alejandro Ochoa Garcia <alexviiiag@gmail.com>
Date: 2026-01-28 10:43:03 -0500
Commit message:

 Functions switched from deprecated to defunct: `read.bed`, `read.tped.recode`, `model.gof`, `center`
Package: lfa
Commit: dc2e93a10ee7dd792d1911dfbcc1c54637542a49
Author: Alejandro Ochoa Garcia <alexviiiag@gmail.com>
Date: 2026-01-28 10:07:44 -0500
Commit message:

 Function `sHWE` greatly reduced memory handling for `BEDMatrix` inputs by writing random genotypes to temporary plink1 BED files
Package: lncRna
Commit: 2bea00bc1280543d0f54a713d7220475bca67714
Author: Dragon96pl <36973370+Dragon96pl@users.noreply.github.com>
Date: 2026-01-28 14:59:04 +0100
Commit message:

 Bump version to 0.99.2: fix docs and license
Package: lncRna
Commit: 81992ddb3d380d18975728a831d5ed85f49533f3
Author: Dragon96pl <36973370+Dragon96pl@users.noreply.github.com>
Date: 2026-01-28 14:17:27 +0100
Commit message:

 Fix prev commit
Package: lncRna
Commit: 1364e7f551a63862c345677c0c7d2714cb0553db
Author: Damian Czopek <36973370+Dragon96pl@users.noreply.github.com>
Date: 2026-01-28 14:16:17 +0100
Commit message:

 Delete man directory
Package: drugfindR
Commit: b6ebc7fbdca5a20008f2d49cb5b455a0e7961456
Author: Ali Sajid Imami <395482+AliSajid@users.noreply.github.com>
Date: 2026-01-28 00:26:45 -0500
Commit message:

 feat: update journal article for compliance with the new guidelines
Package: drugfindR
Commit: 267f13260497c8ea6a89dd5e00f0fcff727b2be7
Author: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>
Date: 2026-01-23 04:33:19 +0000
Commit message:

 chore(deps): update actions/checkout action to v6.0.2 (#182)

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>
Package: BubbleTree
Commit: fbd9af87009530f3c97d3a0ef1f12704f48a861f
Author: lshep <lori.shepherd@roswellpark.org>
Date: 2026-01-28 07:59:36 -0500
Commit message:

 Deprecated

 - user requested on bioc-devel
Package: postNet
Commit: 359d5a3b6a21b77c890fdb13c80b0e07240bee2e
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 10:12:38 +0000
Commit message:

 KS
Package: DOtools
Commit: b74df02c944e7518415b78c29539a4bcc4555b25
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-28 10:51:21 +0100
Commit message:

 Documentation updated
Package: DOtools
Commit: aaf0580a12a65627380e9563ee65889b923d9493
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-26 17:37:56 +0100
Commit message:

 Merge remote-tracking branch 'origin/devel' into devel
Package: DOtools
Commit: c172fe368dd5c3c1668b3f244485effde766ba49
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-26 17:37:41 +0100
Commit message:

 integer bug
Package: DOtools
Commit: 3535b2a666f3491f8663caddfd7a0513f566979e
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-26 15:41:23 +0100
Commit message:

 Add return plot to Celltypist
Package: DOtools
Commit: d1f5fc109b4c6f80cfefdda07024ca703677b278
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-26 15:41:23 +0100
Commit message:

 Add return plot to Celltypist
Package: DOtools
Commit: ed2de413c3d5d0e06e73dae3979692d04c2d9b33
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-26 12:22:21 +0100
Commit message:

 Add random_state argument
Package: DOtools
Commit: 02749cc5345f392599734f7052454012345cc5e9
Author: MarianoRuzJurado <mariani95@gmx.de>
Date: 2026-01-22 10:48:14 +0100
Commit message:

 Add DO.EvalIntegration function
Package: ReactomeGSA
Commit: 8846b67c4912610023ee679bc75f6a0700d7b3bd
Author: Johannes Griss <jg@griss.co.at>
Date: 2026-01-28 10:15:35 +0100
Commit message:

 Fixed bug related to Seurat V5 update
Package: ReactomeGSA
Commit: c38488e4b296cf22cae5fd2f61e96b5f43f647ec
Author: Johannes Griss <jg@griss.co.at>
Date: 2026-01-09 14:01:16 +0100
Commit message:

 Fixed bug in perform_reactome_analysis

Parameter reactome_url was missing in get_reactome_analysis_result
Package: MetaboAnnotatoR
Commit: a36ac5ccf2b5152b3457fec982aef40a65dea971
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 10:27:48 +0200
Commit message:

 new version bump
Package: MetaboAnnotatoR
Commit: 00eaf72bcaae911b869a38c69da944fa18b0b6fb
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 10:26:41 +0200
Commit message:

 change of wd in examples removed
Package: MetaboAnnotatoR
Commit: 8d32a3f0b06fb5c19e21682fb3d8b6fef6c54f29
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-28 10:25:27 +0200
Commit message:

 change of wd in examples removed
Package: CompoundDb
Commit: 03c197986b21b52cafcefa11e59dedf8993af742
Author: Johannes Rainer <5506112+jorainer@users.noreply.github.com>
Date: 2026-01-28 08:25:39 +0100
Commit message:

 Merge pull request #121 from rformassspectrometry/jomain

refactor: map precursorIntensity variable to a same named db column
Package: CompoundDb
Commit: 7c1dc3fc68872e784259739b51c841ef8132ddf5
Author: Johannes Rainer <johannes.rainer@gmail.com>
Date: 2026-01-27 09:55:09 +0100
Commit message:

 refactor: map precursorIntensity variable to a same named db column
Package: CompoundDb
Commit: 34dfbaca02918fb3a5d00aa435c2a2fa54d722a3
Author: Johannes Rainer <johannes.rainer@gmail.com>
Date: 2026-01-12 15:53:03 +0100
Commit message:

 ci: use R devel
Package: monaLisa
Commit: 7ce123cfeadaf7447ce9b4788b5dda7e67e187b2
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 20:32:45 +0100
Commit message:

 Bump cache version
Package: monaLisa
Commit: 4cb4aeeefdd3816b31d2b4bcdc2531c34ce33fe4
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 20:11:02 +0100
Commit message:

 Install fansi from source in GHA workflow (for deployment)
Package: monaLisa
Commit: fa21d5a3b1e779f933feb611a22d588cd4359287
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 19:39:10 +0100
Commit message:

 Merge pull request #92 from fmicompbio/fix-family

Fix family
Package: monaLisa
Commit: dcedeeb904f2b418f1040ab9919b1b10025dea77
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 19:02:27 +0100
Commit message:

 Update NEWS
Package: monaLisa
Commit: 16e9b9be5f3cd198a67daef0af1ddf2e95d3ef03
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 17:54:15 +0100
Commit message:

 Restrict glmnet usage to gaussian and binomial cases (univariate output)
Package: monaLisa
Commit: 5cec6a846f4791ada2199bc0945337988ce19205
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 17:38:53 +0100
Commit message:

 Bump version
Package: methylationArrayAnalysis
Commit: e28ecb4ae1714b577df7d159b55bfcb068916bfe
Author: Jovana Maksimovic <jovana.maksimovic@petermac.org>
Date: 2026-01-28 16:39:20 +1100
Commit message:

 Minor version bump and maintiner email update.
Package: methylationArrayAnalysis
Commit: 3394c4ae480e2e7ba46c8d85c04970bed0bea030
Author: Jovana Maksimovic <jovana.maksimovic@petermac.org>
Date: 2026-01-28 16:23:45 +1100
Commit message:

 Bug fix: disable UCSC track evaluation in vignette to pass build
Package: postNet
Commit: e8f8515e7ebbfb76fadacaabd7b72d54ab08aef5
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 01:45:34 +0000
Commit message:

 KS
Package: postNet
Commit: 69b27d2da27b81f8048cf53dd36f54d23fef246f
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 01:26:54 +0000
Commit message:

 KS
Package: postNet
Commit: 393c5795652cf22f86efa7c0ae7191a38851b161
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 01:07:56 +0000
Commit message:

 KS
Package: postNet
Commit: f346dadc8d125e243d6e2fc7dbacb0991a98874d
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 00:35:15 +0000
Commit message:

 KS
Package: postNet
Commit: 58357e5fa17bf6df7f9d6f78233e96a2916e759c
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-28 00:14:47 +0000
Commit message:

 KS
Package: postNet
Commit: c1df9db0a0e5d40cfe46a83d27af6d2b2c56d75d
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 23:50:57 +0000
Commit message:

 KS
Package: postNet
Commit: 76baf3c5617ad7cc050ad5aa5e0fedbab7681dca
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 23:24:28 +0000
Commit message:

 KS
Package: postNet
Commit: a11553068cc72338230213045064cea7e68ddba2
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 22:58:53 +0000
Commit message:

 KS
Package: postNet
Commit: 49913b2fc9dfb3cac1797adbce121fb6163b0450
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 22:42:46 +0000
Commit message:

 KS
Package: postNet
Commit: bb3934b697ca3c6cbf697af497c7f86d6e041ea2
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 21:48:01 +0000
Commit message:

 KS
Package: postNet
Commit: e4321d2661067c8cb7fdea6fd72d0305dc32ffe7
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 21:24:49 +0000
Commit message:

 KS
Package: postNet
Commit: b4635ad0bee3953536f4986ffef79ed8d9003ed8
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 20:50:39 +0000
Commit message:

 KS
Package: postNet
Commit: a69d8ef19bf211f3f55074307c3ca870031b48b8
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 19:07:24 +0000
Commit message:

 KS
Package: postNet
Commit: 0e5e7f983b4bcc1130fb6d7b2600e5b85b842ce8
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 18:03:22 +0000
Commit message:

 KS
Package: postNet
Commit: dd9b0d0d66afc7086840ae77f92cddc188ffdeb5
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 17:42:49 +0000
Commit message:

 KS
Package: postNet
Commit: 24feccf52813b51960569678a59ee89d9e53255e
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 17:19:41 +0000
Commit message:

 KS
Package: postNet
Commit: 7d96ea649017e0ba7acdadc9ecb72722acad16f7
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 17:12:35 +0000
Commit message:

 KS
Package: postNet
Commit: 338d80a606be3735d346c38762a17a77ed6fd6ef
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 17:03:40 +0000
Commit message:

 KS
Package: postNet
Commit: 8d627ec8974eb03249e8577e6465dedd84d03017
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 15:34:05 +0000
Commit message:

 KS
Package: postNet
Commit: fe402dc5d1c6eba4930d692f30e9b664e2b50d3c
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 15:20:20 +0000
Commit message:

 KS
Package: postNet
Commit: 05f0c94523fc79ed783ad9df336526a92ebb9e95
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 14:19:12 +0000
Commit message:

 KS
Package: postNet
Commit: 4836ec34bfa2e2cced06484a5b1a9aa93e5b3661
Author: Krzysztof Szkop <krzysztof.szkop@gmail.com>
Date: 2026-01-27 13:41:09 +0000
Commit message:

 KS
Package: OAtools
Commit: 721ee355e97b0f8d3028095ddca923dadaa0423f
Author: Aidan Shea <aidantshea@gmail.com>
Date: 2026-01-27 15:50:25 -0800
Commit message:

 Reapply "test: determinePCRResults() and seToQPCRBatch()"

This reverts commit a4d9b5c9a6a748f74e05ec25080556b65246e450.
Package: OAtools
Commit: a4d9b5c9a6a748f74e05ec25080556b65246e450
Author: Aidan Shea <aidantshea@gmail.com>
Date: 2026-01-27 15:38:09 -0800
Commit message:

 Revert "test: determinePCRResults() and seToQPCRBatch()"

This reverts commit 32fedc5ed177d0ea01c396b3f318a727c76b3174.
Package: OAtools
Commit: 32fedc5ed177d0ea01c396b3f318a727c76b3174
Author: Aidan Shea <aidantshea@gmail.com>
Date: 2026-01-27 15:23:24 -0800
Commit message:

 test: determinePCRResults() and seToQPCRBatch()

Adds unit tests to the determinePCRResults() and
seToQPCRBatch() functions. Adds an additional
test to generateReport() to cover the case where
kableExtra is not available. Removes .data syntax
from pivoting function calls in seToQPCRBatch()
to address warnings from testthat.
Package: alevinQC
Commit: 725aff6cbaa4648bcdd6603cd57d94925d0b88fb
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 20:35:41 +0100
Commit message:

 Merge pull request #34 from csoneson/cpp11

Remove explicit C++11 system dependency
Package: alevinQC
Commit: 34e101394456acecb421e2b9ff3d9e03c6128a32
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 20:23:45 +0100
Commit message:

 Bump version, update NEWS
Package: alevinQC
Commit: 6a3d897b84aeb598d1b1de74c00fa7e4f05c0a99
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 20:02:43 +0100
Commit message:

 Install Rcpp from source
Package: alevinQC
Commit: 6efa222eb3b94ff01e2cc1e71aff6d7ac071a26e
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 19:37:53 +0100
Commit message:

 More workflow edits
Package: alevinQC
Commit: baeb2dba5afb8ca3ed3d1341711a2a8c300f933b
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 19:27:24 +0100
Commit message:

 Some additional changes to the workflow file
Package: alevinQC
Commit: c50533f91c62d3427fb79c62880fc6201996d6e3
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 19:09:56 +0100
Commit message:

 clean up GHA workflow file
Package: alevinQC
Commit: 6b516f583fcc3503950a45fcfa616f5442bfc9d0
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 18:56:44 +0100
Commit message:

 Bump cache version
Package: alevinQC
Commit: 4e0d63702eb3aaaf33ad9040c99b85aa95f464a3
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 17:48:27 +0100
Commit message:

 Set CRAN
Package: alevinQC
Commit: f708efd640cb71d9545d91fe415e55f068b87ce3
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-27 17:38:00 +0100
Commit message:

 Set RSPM
Package: alevinQC
Commit: 918ca50ddbec95c7c961a969e5c8d4e58c7ad0a1
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-26 20:53:08 +0100
Commit message:

 Bump cache version on GHA (to get new Rcpp)
Package: alevinQC
Commit: 16d03c6fc3b52089541b6753f070bb9a72e7fa86
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2026-01-26 20:19:18 +0100
Commit message:

 Remove C++11 SystemRequirement
Package: alevinQC
Commit: e9adcce4ff326835a4800b6b647de2f0f74e2ba9
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-12-13 10:50:31 +0100
Commit message:

 Manually install fansi
Package: alevinQC
Commit: dfb2397088794b1e07d04e5e8b8a0ef734ca2f05
Author: Charlotte Soneson <charlottesoneson@gmail.com>
Date: 2025-12-13 10:40:36 +0100
Commit message:

 Manually clear GHA cache
Package: Rfastp
Commit: bed57a30ec23b89d7fc7ce2672fba9b53762d34e
Author: Wei Wang <periwinkle.david@gmail.com>
Date: 2026-01-27 12:57:00 -0500
Commit message:

 remove the zlibbioc dependancy
Package: Battlefield
Commit: 562161bc28cf572d5f2809cb6cf620b35d7b1b3b
Author: Villemin Jean-Philippe <jpvillemin@gmail.com>
Date: 2026-01-27 18:03:16 +0100
Commit message:

 bump
Package: Battlefield
Commit: 0e0830c55394d1dddb8f2ebf36849b36a944743c
Author: Villemin Jean-Philippe <jpvillemin@gmail.com>
Date: 2026-01-27 18:00:44 +0100
Commit message:

 add visium doc missing
Package: Battlefield
Commit: 7688ad51fa605d22366e8f29080acd7f3ae3682c
Author: Villemin Jean-Philippe <jpvillemin@gmail.com>
Date: 2026-01-27 17:50:29 +0100
Commit message:

 remove github web site
Package: cellmig
Commit: ba817856126776bda8c5cc816a2cc4bc5ff8fc62
Author: snaketron <simo.kitanovski@uni-due.de>
Date: 2026-01-27 17:58:10 +0100
Commit message:

 package, vignette, man files, code improved
Package: Battlefield
Commit: 66590d1147e1522369af27f85d7f7cf3c463b9cc
Author: Villemin Jean-Philippe <jpvillemin@gmail.com>
Date: 2026-01-27 17:33:09 +0100
Commit message:

 add the check
Package: MetaboAnnotatoR
Commit: 54da22f12f1d8df80d318f2d5953354752293dea
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:16:37 +0200
Commit message:

 corrections to examples
Package: MetaboAnnotatoR
Commit: afc990c51d1c2a821476d982962f52bb6a3d5097
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:15:21 +0200
Commit message:

 corrections to examples
Package: MetaboAnnotatoR
Commit: 36b8b3a7c9fa11b974e6d49aeeacf06db4773f49
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:14:26 +0200
Commit message:

 corrections and updates to documentation
Package: MetaboAnnotatoR
Commit: fbba7885d310ac4fa9aa49de99c230ef161ae6e5
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:14:06 +0200
Commit message:

 corrections and updates to documentation
Package: MetaboAnnotatoR
Commit: 1d02befc7a6f1a4e8ae3407bb60d1d09bc219716
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:11:25 +0200
Commit message:

 data syntax corrected
Package: MetaboAnnotatoR
Commit: 503dc511bdb24136a6c68454c367c2a9878fb181
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:09:27 +0200
Commit message:

 session info format corrected
Package: MetaboAnnotatoR
Commit: 42727f7824d4573cc42691a510a4b83c8e2753ea
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:08:06 +0200
Commit message:

 examples and library data corrected
Package: MetaboAnnotatoR
Commit: 8fd55aa8829e0234fc6d59931adef9876f8a7040
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:05:28 +0200
Commit message:

 examples corrected
Package: MetaboAnnotatoR
Commit: de9530d415ce0b0a4fc2fda1c8c74d0d38fb935e
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:04:37 +0200
Commit message:

 documentation files removed
Package: MetaboAnnotatoR
Commit: 898dceb6fe4ff79ee308713ee9edba7ab18e6d93
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:03:35 +0200
Commit message:

 documentation files removed
Package: MetaboAnnotatoR
Commit: bd85bc26e5d904cf2ce47b51755f88d8648b22bd
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 17:02:54 +0200
Commit message:

 documentation files removed
Package: MetaboAnnotatoR
Commit: 50deb4822d369df5a833942657f6bc0b440da399
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 16:59:49 +0200
Commit message:

 documentation removed
Package: MetaboAnnotatoR
Commit: 8966055f1c05dcc8ea5ae45df38cceebe86e72af
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 16:57:08 +0200
Commit message:

 msdata suggestion removed, lazy data added
Package: MetaboAnnotatoR
Commit: 5138910c42ef4a84256d0c5f8a7b96b15b3f6a53
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 16:53:36 +0200
Commit message:

 format corrections
Package: MetaboAnnotatoR
Commit: ee837d4c0a5def3ab525c3dcb5b70c981fdffd81
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 16:52:32 +0200
Commit message:

 data documentation
Package: MetaboAnnotatoR
Commit: bece33169d40bd43eaeec3cc539916baa8ef5f4c
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 16:50:41 +0200
Commit message:

 data reformated
Package: MetaboAnnotatoR
Commit: 15f2d558fb62d1ca3809ac614be82416611c6dea
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 11:20:22 +0200
Commit message:

 loading demo data blocks updated
Package: MetaboAnnotatoR
Commit: 175424eb814cc20cdbd1ab32f248ed156210c667
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 11:19:32 +0200
Commit message:

 documentation updated
Package: MetaboAnnotatoR
Commit: f661eeddbf93a43c3f2a1fb087f0a2d3c1442e92
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 11:18:47 +0200
Commit message:

 function option removed
Package: MetaboAnnotatoR
Commit: 6d037a48744fb105c96d4d7e4df7a8cb52977ea2
Author: gggraca <ggraca22@gmail.com>
Date: 2026-01-27 11:16:02 +0200
Commit message:

 documentation changed
Package: scAnnotatR
Commit: fa58911848b17c131c26a8ff13022c6bb2ebefff
Author: Johannes Griss <jg@griss.co.at>
Date: 2026-01-16 15:08:32 +0100
Commit message:

 Updated documentation
Package: scAnnotatR
Commit: dea9102a59593bb290e969dd824aac22557fba3f
Author: Johannes Griss <jg@griss.co.at>
Date: 2026-01-16 15:07:42 +0100
Commit message:

 Fixed examples
Package: scAnnotatR
Commit: 12db12a667173bd876b42ee3d835a42fe8afd855
Author: Johannes Griss <jg@griss.co.at>
Date: 2026-01-15 17:28:51 +0100
Commit message:

 Updated to latest Seurat version
Package: Chromatograms
Commit: 42480ad12fffe4c02c561d92952383c4541bb392
Author: Philippine Louail <philippine.louail@outlook.com>
Date: 2026-01-22 19:24:50 +0100
Commit message:

 Merge pull request #44 from rformassspectrometry/phili

fix vignettes, refactor chromBackendSpectra
Package: Chromatograms
Commit: 5ee9cc4dc0c36427718ec70609e2d1f3beda4ae9
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-22 19:05:07 +0100
Commit message:

 fix test
Package: Chromatograms
Commit: d26ead0cbd3d7afcc8cecd210cb561c0188362f0
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-22 18:56:32 +0100
Commit message:

 fix comment jo on documentation
Package: Chromatograms
Commit: a07a7390067eba8c1c9136b36cba82286b969451
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-21 15:14:29 +0100
Commit message:

 fix jo's comments
Package: Chromatograms
Commit: 5a5537d2d17abc4317b11b09061b9a1a618f8b43
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-21 13:38:40 +0100
Commit message:

 fix checks
Package: Chromatograms
Commit: 11cfd82f5e16c897a6e5e90dfb21fb76bac486d9
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-21 13:33:35 +0100
Commit message:

 refactor: vignettes, bioc3.22
Package: Chromatograms
Commit: 3ace76e03c6a1063dfae46b16d5a9629ee5faf04
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-21 10:21:23 +0100
Commit message:

 Merge remote-tracking branch 'upstream/devel' into phili
Package: Chromatograms
Commit: c2759e92fdc17eeae19b3efb9acdd6527fc7c4b6
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-21 10:20:18 +0100
Commit message:

 refactor vignette
Package: Chromatograms
Commit: 876abea51608815e7e778aff97b7546822ff3765
Author: Philippine Louail <127301965+philouail@users.noreply.github.com>
Date: 2026-01-13 17:01:13 +0100
Commit message:

 whitespaces
Package: SeqArray
Commit: d107c1f913d85eddde45216c1bf264fb76429413
Author: Xiuwen Zheng <zhengxwen@gmail.com>
Date: 2026-01-26 23:38:19 -0600
Commit message:

 minor fix
Package: BioPlex
Commit: 6576d48ea7172ae94346b392637c5c198bc0114a
Author: lgeistlinger <ludwig.geistlinger@gmail.com>
Date: 2026-01-26 20:47:36 -0500
Commit message:

 remove CNV data
Package: BioPlex
Commit: 8baa5af7316214e36170fff792a7e1068565535f
Author: lgeistlinger <ludwig.geistlinger@gmail.com>
Date: 2026-01-26 18:51:50 -0500
Commit message:

 Merge remote-tracking branch 'upstream/devel' into devel
pull upstream changes
Package: BioPlex
Commit: c99a01846460b71078fdaf01047362aeedbba55f
Author: lgeistlinger <ludwig.geistlinger@gmail.com>
Date: 2023-08-04 19:39:45 -0400
Commit message:

 Update README.md
Package: cellmig
Commit: 4ba8e4363d1438e22886239f5a2e4f31f4a02021
Author: snaketron <simo.kitanovski@uni-due.de>
Date: 2026-01-27 01:30:12 +0100
Commit message:

 bump in functionality
Package: cellmig
Commit: 82b253394ec60a52a1e21a55ce135c36a75a4433
Author: snaketron <simo.kitanovski@proton.me>
Date: 2026-01-26 17:42:38 +0100
Commit message:

 update before new manuscript
Package: cellmig
Commit: 4f5eb787e2187e070a4bba41e7f2d34b2fec0d03
Author: snaketron <simo.kitanovski@proton.me>
Date: 2025-12-10 16:17:07 +0100
Commit message:

 Merge remote-tracking branch 'upstream/devel'
Package: cellmig
Commit: f299ef2827fe6d78c8bf746dcc00f981e478d162
Author: snaketron <snaketron@users.noreply.github.com>
Date: 2025-09-15 12:13:41 +0200
Commit message:

 Update README.md

Better readme
Package: ENmix
Commit: c3bf74e0373fadd634299166e3edb25ec707cb03
Author: xuz1 <xuz@niehs.nih.gov>
Date: 2026-01-26 19:22:06 -0500
Commit message:

 bugfix

Signed-off-by: xuz1 <xuz@niehs.nih.gov>
Package: SynExtend
Commit: 9315c7511a27aece19417db35b5778cb535d616b
Author: ahl27 <30053966+ahl27@users.noreply.github.com>
Date: 2026-01-21 16:32:29 -0500
Commit message:

 Fix issue with Standardize_Subset where something inexplicable was happening.

Not sure what I was even intending to do. Previous state of this system was doing
something crazy when passed input of `Subset` that was an integer vector.

I've simplified this codepath to make it more understandable and left some
documentation. Should be working correctly now.
Package: comapr
Commit: 7df6a18456a7a8150ac162bd79a4b08da9016157
Author: ruqianl <xiaoru.best@gmail.com>
Date: 2026-01-27 10:57:06 +1100
Commit message:

 version bump 1.15.1
Package: comapr
Commit: 1cd8c7e6e74c8dbbc5a5bed787c8b3f95ced7ec9
Author: ruqianl <xiaoru.best@gmail.com>
Date: 2026-01-27 10:44:25 +1100
Commit message:

 fix test case errors
Package: smoppix
Commit: cb77b439778cfb4f10f0a45051ba9d70f5297e5b
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2026-01-12 16:12:30 +0100
Commit message:

 Without shared.h
Package: smoppix
Commit: 2a55434655c24536c1a0b3579d19cbad9b0c25ac
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2026-01-12 15:54:16 +0100
Commit message:

 Justify code extraDistr
Package: smoppix
Commit: 579c11989bd6274e81fe03c5eb0d7fac7b6f437c
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2026-01-12 15:46:46 +0100
Commit message:

 Reove superfluous news.rmd
Package: smoppix
Commit: a3995ac4623a984a8f3cb2cb6fc71fb2b414275b
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2026-01-12 15:39:49 +0100
Commit message:

 With all negative hypergeometric functions in house
Package: smoppix
Commit: 3b77c17a9632c1ebead5b4e584fa41f25e0259de
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2025-12-09 10:16:02 +0100
Commit message:

 Version bump to devel again
Package: smoppix
Commit: df5f1dc300b66b206eb0080de5b15f1493c78177
Author: stijn <stijn.hawinkel@psb.ugent.be>
Date: 2025-12-09 10:09:44 +0100
Commit message:

 Correct version bump
Package: signatureSearch
Commit: 3e34cc1d5ec95b94dfe90298fca52095b1da6810
Author: brendangongol <brengong@gmail.com>
Date: 2026-01-26 09:40:19 -0800
Commit message:

 Addressed warning messages
Package: famat
Commit: 5d8a8148530b3f82913caf7ae6c120a22b662cdd
Author: MathieuCharlesINRAE <mathieu.charles@inrae.fr>
Date: 2026-01-26 16:14:05 +0100
Commit message:

 Small Fix, added Rdata
Package: famat
Commit: ec9afcf99d3bcfb27f1b4a49ce0c5e3175c9806e
Author: MathieuCharlesINRAE <mathieu.charles@inrae.fr>
Date: 2026-01-26 16:09:34 +0100
Commit message:

 Small Fix, added Rdata
Package: famat
Commit: f55625dded47452bd4f9b75bbc2064b2cfb03ecf
Author: MathieuCharlesINRAE <mathieu.charles@inrae.fr>
Date: 2026-01-15 09:53:28 +0100
Commit message:

 Fix metabolites imported form csv
Package: famat
Commit: 0cba16bc287ec1e4e217d735146f6807647bacdd
Author: MathieuCharlesINRAE <mathieu.charles@inrae.fr>
Date: 2026-01-05 16:02:34 +0100
Commit message:

 Fix for change in KEGGrest not supporting Chebi anymore
Package: qPLEXanalyzer
Commit: 86659fb4ce78007bd245468015fae3c09ba23930
Author: Ashley Sawle <ads2202cu@gmail.com>
Date: 2026-01-26 15:03:43 +0000
Commit message:

 Added MSnbase to suggests
Package: SpaceTrooper
Commit: 775e82f9f6d4cef5dfbbf2d9beb1f6dbcbc4120e
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 15:25:13 +0100
Commit message:

 version bump
Package: rigvf
Commit: fe2e2308cf9ef341a3a0b2abddcf39a19c88b2ec
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-01-26 08:36:37 -0500
Commit message:

 try adding write permissions into workflow
Package: rigvf
Commit: 2ec726a521e36cc810103a17a36804b01b6e15e1
Author: Mike Love <mikelove@users.noreply.github.com>
Date: 2026-01-25 12:17:01 -0500
Commit message:

 try again
Package: SpaceTrooper
Commit: d1b9d7436a986afda6c2e06e6e00bb5c5ccf168a
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 14:16:44 +0100
Commit message:

 version bump
Package: notameViz
Commit: 4b89760834d90faed84482775ce8a2fc2185853a
Author: Atte Lihtamo <98050742+attlih@users.noreply.github.com>
Date: 2026-01-26 14:58:56 +0200
Commit message:

 Remove external pdf tool dependencies (#7)

* feat: remove requirement for external tools when combining QC plots

* remove duplicated code

* Fix error with remove_singles = TRUE and clean

---------

Co-authored-by: vsuksi <vsuksi@proton.me>
Package: notameViz
Commit: d1fcf1534231b8b0f29001f50d69cde6f11e4648
Author: attlih <98050742+attlih@users.noreply.github.com>
Date: 2026-01-20 15:39:13 +0200
Commit message:

 version bump
Package: notameViz
Commit: 6d0fe41dc77d9be7a435789e48ad6c18f38525b2
Author: attlih <98050742+attlih@users.noreply.github.com>
Date: 2026-01-20 15:17:47 +0200
Commit message:

 update news
Package: notameViz
Commit: c5cde22fa1d83eea413df6c22e0c188ae8f2a34b
Author: attlih <98050742+attlih@users.noreply.github.com>
Date: 2026-01-20 15:14:19 +0200
Commit message:

 fix: save_QC_plots() default color option
Package: SpaceTrooper
Commit: e69073f60253fb168fbb693c691ef553e5b19c52
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 13:37:51 +0100
Commit message:

 version bump
Package: SpaceTrooper
Commit: 6f21280f0abc5df5b8f12c98e037bde0198d1049
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 13:29:28 +0100
Commit message:

 some spaces in a vignette
Package: SpaceTrooper
Commit: 8aa2309f4fcaa0ad21cf855b76c24004f8e4061f
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 13:25:57 +0100
Commit message:

 Merge branch 'devel' of github.com:drighelli/SpaceTrooper into devel
Package: SpaceTrooper
Commit: 55f1b79ffea2733b37eb129d6932c7f94cc9296b
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 12:44:09 +0100
Commit message:

 Merge pull request #58 from drighelli/light_fix

readME and vignette devel installation code line
Package: SpaceTrooper
Commit: 141e3bcbfe5f442ab6326f32dd6e5553e01a1929
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 12:26:34 +0100
Commit message:

 Update RNA_tutorial_vignette.rmd
Package: SpaceTrooper
Commit: 8c685bfa4b4326da8659bde02eae49ff9c89d91c
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 12:26:03 +0100
Commit message:

 Remove installation section from Protein tutorial vignette

Removed the installation instructions for the SpaceTrooper package from the vignette.
Package: SpaceTrooper
Commit: ca41e73d62e1578109c2fac1ef64daefb75f5ea8
Author: Chinchilla <komomobijin@gmail.com>
Date: 2026-01-26 12:06:27 +0100
Commit message:

 readME and vignette devel installation code line
Package: SpaceTrooper
Commit: 7af5dfbbe93744e48dbcb01d0dfc51af713d5007
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 11:37:15 +0100
Commit message:

 fixing interop vignette name in readme and vign
Package: SpaceTrooper
Commit: 81ecf4b98d1254f4c715bc0da5c7a391a9278ee6
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 11:25:43 +0100
Commit message:

 Merge pull request #57 from drighelli/documentation_jan25

Documentation jan25
Package: SpaceTrooper
Commit: d70b8fa99343b7c1b5144c99d155b1456aca0b3d
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 11:01:09 +0100
Commit message:

 Merge branch 'devel' into documentation_jan25
Package: SpaceTrooper
Commit: 26c6ad8e5f91ab1739b51bf049886ff52986f3e9
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-26 10:56:19 +0100
Commit message:

 fixing documentation
Package: SpaceTrooper
Commit: dbe0dbbcfcca78c7b11f964f26201f949fbe773e
Author: dario righelli <dario.righelli@gmail.com>
Date: 2026-01-26 09:39:02 +0100
Commit message:

 Merge pull request #56 from drighelli/light_fix

Minor fixes to devel code, README and other files
Package: SpaceTrooper
Commit: 01838e5e934d6074a02202d905f1a089e51919d4
Author: Chinchilla <komomobijin@gmail.com>
Date: 2026-01-23 18:22:39 +0100
Commit message:

 vignettes
Package: SpaceTrooper
Commit: acdd95a7674cdf4c0e6c5ba13790eb6efbecd514
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-22 19:30:54 +0100
Commit message:

 fixing details in spatialpercellqc and readandaddpolygons
Package: SpaceTrooper
Commit: 80a90d2baedae49d9d83e902bbc18cca7bcd5081
Author: Chinchilla <komomobijin@gmail.com>
Date: 2026-01-22 18:08:07 +0100
Commit message:

 README, QC: checkOutliers with fixed error message, lighter graphical abstract, changed files for Protein example data for tutorial vignette, RNA and Protein tutorial vignette
Package: SpaceTrooper
Commit: 8b7a5c2fc07215fbd6069b1cbd16ecf0d29128e0
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-20 16:51:17 +0100
Commit message:

 adding new doc files
Package: SpaceTrooper
Commit: 86e5310f514af86a03435e0950d981109420d03d
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-20 15:45:49 +0100
Commit message:

 fixing indentation
Package: SpaceTrooper
Commit: 294102812e86eb420333dcefb4700234319b6644
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-20 15:45:08 +0100
Commit message:

 fixing doc for readMerfish regarding parameters, adding details
Package: SpaceTrooper
Commit: 70e61fa30dce1ffbaf15349fadd787e453153d03
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-20 15:44:39 +0100
Commit message:

 read cosmx protein doc optimized
Package: SpaceTrooper
Commit: 038158cf2129a01c778d9b72cadd602282478c30
Author: Dario <dario.righelli@gmail.com>
Date: 2026-01-20 11:56:52 +0100
Commit message:

 fixing readcosmx doc, adding keeppols arg
Package: SpaceTrooper
Commit: 96fef5c8381f6474f51ce62af6d73c2a54a04d3d
Author: Chinchilla <komomobijin@gmail.com>
Date: 2026-01-19 18:30:54 +0100
Commit message:

 Updated MIT LICENSE file, README with GraphAbstract and SpaceTrooper yml. R/QC: added different message when log2SignalDensity outliers are not found. R/readCosMx: removed shift correction. R/readMERFISH: added message to warn user that volume is used for QC score computation and renamed as "Area_um".
Package: SpaceTrooper
Commit: a260e41025686e5d12127ae5c274389ceb9a7898
Author: Dario <dario.righelli@gmail.com>
Date: 2025-12-15 16:06:27 +0100
Commit message:

 version 1.1.3 bump
Package: SpaceTrooper
Commit: 7ce50eb4b2a0cf120bee09c0ae502cf891b393d9
Author: Dario <dario.righelli@gmail.com>
Date: 2025-12-15 16:06:04 +0100
Commit message:

 adding version 113 to news file
Package: SpaceTrooper
Commit: 580b4758aa10c39216524f7e9db6dae61684e242
Author: Dario <dario.righelli@gmail.com>
Date: 2025-12-15 16:05:01 +0100
Commit message:

 fixing verbose messages in QC functions
Package: SpaceTrooper
Commit: 18167a3d8ed08c5f8ab889a4e204a73028b7d6c2
Author: Dario <dario.righelli@gmail.com>
Date: 2025-12-12 16:22:35 +0100
Commit message:

 changing version in devel for GHA file
Package: SMTrackR
Commit: 0d42f1075dab054c53cc78e8a230151c0a2c6078
Author: satyanarayan-rao <satyanarayan.rao@cuanschutz.edu>
Date: 2026-01-26 18:02:03 +0530
Commit message:

 incremented version and added some more description
Package: SMTrackR
Commit: 61eb809352cf53699b7ad51d9bba5e28d938a1a7
Author: satyanarayan-rao <satyanarayan.rao@cuanschutz.edu>
Date: 2026-01-26 17:02:05 +0530
Commit message:

 Warnings resolved. Only few notes left. First time trying push to Bioconductor.
Package: notame
Commit: bf804036f6be4219bf4d1939f638de2c4479fabd
Author: vsuksi <104491648+vsuksi@users.noreply.github.com>
Date: 2026-01-26 11:22:19 +0200
Commit message:

 Modify assay control (#22)

* Allow overwrite of assay when using multiple assays (without warning)

* Remove line left over from MetaboSet-support

* Bump version
Package: notame
Commit: 1eca845774534b847b233caf56f20f07ee9dbaf8
Author: attlih <98050742+attlih@users.noreply.github.com>
Date: 2026-01-23 15:59:58 +0200
Commit message:

 update docs
Package: notame
Commit: 10564d2e0578009564ec24d638e78f5eec0c2fb5
Author: attlih <98050742+attlih@users.noreply.github.com>
Date: 2026-01-23 15:26:23 +0200
Commit message:

 fix malformatted DESCRIPTION file
Package: notame
Commit: caf0077a79b4c000b6f8f2c7093354ae3acc99f3
Author: Artur Sannikov <git-sign@asannikov.com>
Date: 2026-01-22 12:37:14 +0200
Commit message:

 chore: add missing ORCID
Package: netboost
Commit: fb5e8b9e82f8311cce6b0b7bd4865e61b5a55127
Author: PascalSchlosser <pascal.schlosser@uniklinik-freiburg.de>
Date: 2026-01-26 09:47:56 +0100
Commit message:

 init fix
Package: netboost
Commit: d87d5a0837ffec1150f117ff8fbe8c32eadca708
Author: PascalSchlosser <pascal.schlosser@uniklinik-freiburg.de>
Date: 2026-01-26 09:47:24 +0100
Commit message:

 link doc
Package: netboost
Commit: 3219ab567072fab83f431441e85c47380086108b
Author: PascalSchlosser <pascal.schlosser@uniklinik-freiburg.de>
Date: 2026-01-26 09:47:09 +0100
Commit message:

 function def
Package: netboost
Commit: 184866ef876872b4e782dcf65edbe1cd4a73f965
Author: PascalSchlosser <pascal.schlosser@uniklinik-freiburg.de>
Date: 2026-01-26 09:46:40 +0100
Commit message:

 cpp int def
Package: netboost
Commit: 07c9bd66cb7eb855b60d58334be35c1ac1a64682
Author: PascalSchlosser <pascal.schlosser@uniklinik-freiburg.de>
Date: 2026-01-26 09:46:18 +0100
Commit message:

 std, isleftgreat fix
Package: smartid
Commit: a9c3970de0d417ec2f26a9e1d35377faa790524d
Author: Gene233 <chen_jj97@163.com>
Date: 2026-01-26 16:14:46 +1100
Commit message:

 Version bump.
Package: smartid
Commit: 36d76f690a353c6863b8d0252222a5bb5113cb6b
Author: Gene233 <chen_jj97@163.com>
Date: 2026-01-26 16:01:49 +1100
Commit message:

 Add bioRxiv citation.
Package: smartid
Commit: d73d4abde7465858f1800e68e240f02b00d579ca
Author: Gene233 <chen_jj97@163.com>
Date: 2026-01-26 15:50:23 +1100
Commit message:

 Merge remote-tracking branch 'upstream/devel' into devel
Package: smartid
Commit: d1d86e3fff864ff1bac73e600201b74700d3998b
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-24 11:19:01 +1100
Commit message:

 Add sticker for smartid.
Package: smartid
Commit: bc8b42df9deb3d316251f49efc5547607adcf5dc
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-11 23:04:39 +1100
Commit message:

 update yaml.
Package: smartid
Commit: bbc74539255b584dfd4a2e7645c98f9cadd13351
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-11 22:59:18 +1100
Commit message:

 update bioc check yaml.
Package: smartid
Commit: 50aa95b44a223464a7fb4c1ddc7abf5485241641
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-11 22:47:29 +1100
Commit message:

 update bioc check yaml.
Package: smartid
Commit: da53a7804d0cd45e57017d10f163ca0fa3349de7
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-11 17:55:22 +1100
Commit message:

 Update README.
Package: smartid
Commit: cb00f6fab86c96900ee1c47053cf9b4332aa5d54
Author: Gene233 <chen_jj97@163.com>
Date: 2025-03-11 17:53:28 +1100
Commit message:

 Added workflow image to README.
Package: mastR
Commit: 5407010d1eb34ebc3b0a1a4dffab38b0e51f31be
Author: Gene233 <chen_jj97@163.com>
Date: 2026-01-26 15:36:19 +1100
Commit message:

 Version bump.
Package: mastR
Commit: 1c4f8f02485fcc84a1c94724f80e414721ffa7a6
Author: Gene233 <chen_jj97@163.com>
Date: 2026-01-26 15:05:41 +1100
Commit message:

 Fix SeuratObject v5 problem.
Package: gwascat
Commit: f456e2cbe70719220b07cd66aa46f5b0c9e41b63
Author: vjcitn <stvjc@channing.harvard.edu>
Date: 2026-01-25 22:09:49 -0500
Commit message:

 updating to be sure that 1.0.2 EBI GWAScat version is used, that includes ontology tags
Package: dreamlet
Commit: f1b2d0b25d94b197e814c00b307594f04311cfdf
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2026-01-25 20:06:28 -0500
Commit message:

 1.9.1
Package: dreamlet
Commit: d617efcd6020eee05a4f4eae080eed5f9e7fe371
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2026-01-25 19:49:37 -0500
Commit message:

 update docs
Package: dreamlet
Commit: 7d2245f16c7685cead4d8e4d8312cfbb90a20967
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2026-01-25 14:47:19 -0500
Commit message:

 1.9.1
Package: dreamlet
Commit: e6990b81f29ac7b6025ad1f1a568240979e39069
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2026-01-25 14:45:48 -0500
Commit message:

 1.7.2
Package: dreamlet
Commit: 3d39ae86a65232561ffda991464174ae077bd4d6
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-09-22 09:56:08 -0400
Commit message:

 update docs
Package: dreamlet
Commit: 28b6901bd0da14c5356932e47ed4bdd6fa1b3ad2
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-04-24 15:42:16 -0400
Commit message:

 update docs
Package: dreamlet
Commit: 7f69d296debe27466a42f99cbabb945776322322
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-04-24 15:29:25 -0400
Commit message:

 update
Package: dreamlet
Commit: 88acb0a3504bfdf1747bbb4462f2697e53a25a8c
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-04-24 15:25:43 -0400
Commit message:

 1.6.1
Package: dreamlet
Commit: 12d8a7dc4d6156eee80872d5796db83e82947029
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-04-24 15:22:01 -0400
Commit message:

 1.5.2
Package: dreamlet
Commit: c704171abea566c409dfa3b554ce456822f9d88e
Author: A Wokaty <andres.wokaty@sph.cuny.edu>
Date: 2025-04-15 13:20:27 -0400
Commit message:

 bump x.y.z version to odd y following creation of RELEASE_3_21 branch
Package: dreamlet
Commit: a7bc6445c73915b6ba60acdf501fca2c97e57713
Author: A Wokaty <andres.wokaty@sph.cuny.edu>
Date: 2025-04-15 13:20:27 -0400
Commit message:

 bump x.y.z version to even y prior to creation of RELEASE_3_21 branch
Package: dreamlet
Commit: ffc0f07e723693bd9838de44bda2a12911265906
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-03-25 15:46:44 -0400
Commit message:

 1.5.1
Package: dreamlet
Commit: 53c7880a9f5f23a2a4a4b9cf9d7b6759a84806b1
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-03-25 15:44:39 -0400
Commit message:

 1.4.1
Package: dreamlet
Commit: 5266c80d32d4a1b47a49c7c5c8149a2c09cd3ff5
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2025-03-25 15:18:14 -0400
Commit message:

 1.4.1
Package: dreamlet
Commit: 8949a01c62dc95c3c1b86c1295a7a6e7f1811734
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-11-20 14:14:22 -0500
Commit message:

 update docs
Package: dreamlet
Commit: c2da69f3b63b18908c227796f2f8e88a2a7f3357
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-11-05 15:48:54 -0500
Commit message:

 1.4.1
Package: dreamlet
Commit: df9f8b66a5c308657c1aa5adfa2a8aa6a82377fa
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-11-05 15:48:54 -0500
Commit message:

 1.4.1
Package: dreamlet
Commit: 3664306c37606745503a6c1c11392c4f20bedc83
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-11-05 15:38:11 -0500
Commit message:

 update docs and deps
Package: dreamlet
Commit: 9bdf4dfb203c09035ea912d5d2d80a63b0f9f0b5
Author: J Wokaty <jennifer.wokaty@sph.cuny.edu>
Date: 2024-10-29 11:23:25 -0400
Commit message:

 bump x.y.z version to odd y following creation of RELEASE_3_20 branch
Package: dreamlet
Commit: b90ea42947c4e3e9df703c14e0df368803c13749
Author: J Wokaty <jennifer.wokaty@sph.cuny.edu>
Date: 2024-10-29 11:23:25 -0400
Commit message:

 bump x.y.z version to even y prior to creation of RELEASE_3_20 branch
Package: dreamlet
Commit: bbea16cb4b32a1b0bc4d543119245db0d3733818
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-10-27 19:50:27 -0400
Commit message:

 1.3.4
Package: dreamlet
Commit: 1720d9328cf99858d367b0995795f257886c7e2d
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-10-22 16:39:37 -0400
Commit message:

 update docs
Package: dreamlet
Commit: 45c09d095c82a53134e79fe4b3c31bd6cf81815b
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-10-22 16:09:16 -0400
Commit message:

 update docs
Package: dreamlet
Commit: 8fcf6eee7e76c7cde711763750b319d099a3f89a
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-07-19 15:52:23 -0400
Commit message:

 1.3.3
Package: dreamlet
Commit: fc1e83b1f5c96ed35ac2341ae433050994dbab01
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-07-10 15:30:18 -0400
Commit message:

 1.3.2
Package: dreamlet
Commit: 8130402d7187d07d41228af8e12d0d311b014bc1
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-06-06 11:28:44 -0400
Commit message:

 stash
Package: dreamlet
Commit: 5ad2806745adff4d9eb5d7eb1d3d4433af651f4d
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-31 14:54:40 -0400
Commit message:

 1.3.1
Package: dreamlet
Commit: 1090af08f3a6fd5876926fbfb99511d66029491a
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-31 14:35:31 -0400
Commit message:

 clean up
Package: dreamlet
Commit: f7de459d86561b38a186837f926c39556349772c
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-30 14:46:30 -0400
Commit message:

 update figure
Package: dreamlet
Commit: c37dbe6803bbda8fe294360f7887eaa30422e98d
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-30 14:44:59 -0400
Commit message:

 update figure
Package: dreamlet
Commit: eb9d21e303e49defc89773e106c60f71bcb8778f
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-28 11:55:17 -0400
Commit message:

 1.1.24
Package: dreamlet
Commit: a8d7b9165b1dfd30320ef449dd41090d811ae9a5
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-17 10:20:14 -0400
Commit message:

 update cutoff
Package: dreamlet
Commit: c83dc76aa6b090185b595f240437944253ab8e13
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-16 14:04:40 -0400
Commit message:

 1.1.23
Package: dreamlet
Commit: f33c6c66c410bb4cc84ff1adfbf9e256261c12ad
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-14 16:03:16 -0400
Commit message:

 1.1.22
Package: dreamlet
Commit: 7d766fc8b61088ba318bb8d3445f6177fc06cac9
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-05-06 14:43:37 -0400
Commit message:

 1.1.21
Package: dreamlet
Commit: 50a3c5019ca310710177ef581fb4fb25f0a8b5ed
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2024-04-30 11:51:18 -0400
Commit message:

 bump x.y.z version to odd y following creation of RELEASE_3_19 branch
Package: dreamlet
Commit: 13a6c59b42fd9fe141badd95fd9d8dc3b5ba9c73
Author: J Wokaty <jwokaty@users.noreply.github.com>
Date: 2024-04-30 11:51:18 -0400
Commit message:

 bump x.y.z version to even y prior to creation of RELEASE_3_19 branch
Package: dreamlet
Commit: d06395fbca9058707fa3d71da160e29e1b5d5ac1
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-28 15:51:06 -0500
Commit message:

 1.1.19
Package: dreamlet
Commit: 6feddc72fcc5cd9f9e0e08964e162abbbed9696e
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-14 12:30:42 -0500
Commit message:

 1.1.18
Package: dreamlet
Commit: bcd1d777b1424ad6d795b32894174e5bebe9ed9a
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-14 12:12:35 -0500
Commit message:

 update docs
Package: dreamlet
Commit: 503e7ad0cb735c4e626d210218b789ac692dd73f
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-14 11:57:04 -0500
Commit message:

 bug fix
Package: dreamlet
Commit: 9fc72996ea3ded0521eccdddacf4ddea2e1ec335
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-13 16:12:48 -0500
Commit message:

 1.1.17
Package: dreamlet
Commit: 0b537aec7202ebd9f0912f5f1004f47036327154
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-13 14:50:03 -0500
Commit message:

 1.1.17
Package: dreamlet
Commit: 931e2c7667c708065ba95aa3b3ab7c926a391a7d
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-13 13:46:02 -0500
Commit message:

 1.0.1
Package: dreamlet
Commit: fc2c0a716208b0a413e53d99d144a0ca52c794b9
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-12 14:11:14 -0500
Commit message:

 1.1.17
Package: dreamlet
Commit: fa5bc33e430c06eedc10a658298bf2f1fde6f959
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-09 15:24:08 -0500
Commit message:

 update news
Package: dreamlet
Commit: 45ddd6a8508137a1a7f3bb07cbea54376dba52c5
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-09 14:53:33 -0500
Commit message:

 update PC scaling
Package: dreamlet
Commit: ccd7516f43a731c0161343c1e290164cf034f7e7
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-09 14:39:43 -0500
Commit message:

 fix PC scaling
Package: dreamlet
Commit: 08c6c9dade5e3feaafc26d037479bd7a03d09a00
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-09 11:38:33 -0500
Commit message:

 update figure
Package: dreamlet
Commit: fdc6feaa44ee1d273fc806a46071e599c31ad356
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-08 22:10:22 -0500
Commit message:

 fix bug in checks
Package: dreamlet
Commit: 31d5bc93ddf2517fbc54174915f928907abb9aa8
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-08 21:51:22 -0500
Commit message:

 update docs and PCA
Package: dreamlet
Commit: 2c03d65b7b9ecb80f21237bd358447229b71877e
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-08 20:01:11 -0500
Commit message:

 1.1.16
Package: dreamlet
Commit: b24ec891e63c4099d7af1f055fe8c26409a9b504
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-08 15:28:12 -0500
Commit message:

 test vif = 1
Package: dreamlet
Commit: 4201813a1dd708c7097cc4cede29cf96149c045b
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-08 10:16:19 -0500
Commit message:

 1.1.16
Package: dreamlet
Commit: d30f19fc7172f61d369c10a463248a55eb897821
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-07 11:54:36 -0500
Commit message:

 update deps
Package: dreamlet
Commit: d7f767351a5cad082d4cca45996a1b30f0646ab2
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-06 15:04:45 -0500
Commit message:

 update deps
Package: dreamlet
Commit: 1352559c111ae32af2a78c03b346bf50d537b87b
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-05 16:09:45 -0500
Commit message:

 1.1.15
Package: dreamlet
Commit: 174e9313470f12a03afff6c9a3958c5d658ade86
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-05 16:05:29 -0500
Commit message:

 tmp push
Package: dreamlet
Commit: b39aa53d1f0ecd9160f869c51fcc1d2d314818b7
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-05 09:57:40 -0500
Commit message:

 bug fix
Package: dreamlet
Commit: 43574d2112c9ff5673b9a11521c14b66c65e044f
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-02-02 13:09:23 -0500
Commit message:

 bug fix
Package: dreamlet
Commit: 9e59f3b94de6f207001e6c7cb479a158f693ed57
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-29 17:44:35 -0500
Commit message:

 update
Package: dreamlet
Commit: 8d80655cb0298a06d14b9e05088d84e16ddfe2c5
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-29 17:15:32 -0500
Commit message:

 update
Package: dreamlet
Commit: a2ea587f54fe595f86b315b3bf018b56278e7c2b
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-29 15:31:57 -0500
Commit message:

 update
Package: dreamlet
Commit: e5944744c41f81d63c145f53be71f4707f1a443e
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-29 13:48:23 -0500
Commit message:

 update
Package: dreamlet
Commit: e4ea7dee464ac33db825a894d4ca4c225b52cbaa
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-29 13:16:39 -0500
Commit message:

 1.1.14
Package: dreamlet
Commit: 782b7cb4c725be1a117d5d2068cdf57c17154b06
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-28 11:33:04 -0500
Commit message:

 update
Package: dreamlet
Commit: 15653cceb7f3f3523ba78085127e0ef715e21a82
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-26 10:02:41 -0500
Commit message:

 update
Package: dreamlet
Commit: a9e399c6dea66ea7a23b9c2c36838631d9b7ccca
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 20:45:14 -0500
Commit message:

 add outliers code
Package: dreamlet
Commit: 7f1582172f36c2f78ad2cb758f7878be1d53dde9
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 20:38:44 -0500
Commit message:

 add outliers code
Package: dreamlet
Commit: b0fcfabe643a892612478f15c9c2f57537c4e673
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 18:45:51 -0500
Commit message:

 bug fix
Package: dreamlet
Commit: ce6582b094a06b153008cb90d1fd33d2e55e8028
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 16:18:04 -0500
Commit message:

 add arg
Package: dreamlet
Commit: 69c0ec3b240d01f2ab379af3ba2bb5ab71472235
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 16:05:22 -0500
Commit message:

 1.1.13
Package: dreamlet
Commit: 627a311ea7d29be40ce4c1a7a7161a9d9e391390
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 10:49:46 -0500
Commit message:

 1.1.13
Package: dreamlet
Commit: e1b2699e5022d554237f55a661dff7c10c3ed617
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-25 10:31:12 -0500
Commit message:

 1.1.13
Package: dreamlet
Commit: 313ea665f48219d4023056f5e3e371b2f4dcf3dc
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-23 16:26:50 -0500
Commit message:

 update docs
Package: dreamlet
Commit: 82740bd132b5415ea79fb0f5df9936473b490bb1
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-23 10:29:28 -0500
Commit message:

 bug fix
Package: dreamlet
Commit: 69b782aceef67da310f63976200898f71e86727c
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-23 09:47:03 -0500
Commit message:

 add details
Package: dreamlet
Commit: b60d49a7a06533e5d2f5eff8461c22873e5029c5
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-22 21:24:20 -0500
Commit message:

 add computeVIF
Package: dreamlet
Commit: 7fabe597025baa415f0ea3551375153d8c6efc25
Author: Gabriel Hoffman <gabriel.hoffman@gmail.com>
Date: 2024-01-22 11:21:02 -0500
Commit message:

 small bug fix