1. BioQC
  2. Graph
Graph of BioQC
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  • 3e34934 (HEAD -> devel, origin/master, origin/devel, origin/HEAD) bump x.y.z version to odd y following creation of RELEASE_3_17 branch by J Wokaty <jwokaty@users.noreply.github.com> 2023-04-25 10:42:59 -0400;
  • 717b921 (origin/RELEASE_3_17, RELEASE_3_17) bump x.y.z version to even y prior to creation of RELEASE_3_17 branch by J Wokaty <jwokaty@users.noreply.github.com> 2023-04-25 10:42:59 -0400;
  • a5a9122 bump x.y.z version to odd y following creation of RELEASE_3_16 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2022-11-01 11:12:35 -0400;
  • c4cfa15 (origin/RELEASE_3_16, RELEASE_3_16) bump x.y.z version to even y prior to creation of RELEASE_3_16 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2022-11-01 11:12:35 -0400;
  • 8218ae1 bump x.y.z version to odd y following creation of RELEASE_3_15 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2022-04-26 15:28:28 +0000;
  • ca8b2f2 (origin/RELEASE_3_15, RELEASE_3_15) bump x.y.z version to even y prior to creation of RELEASE_3_15 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2022-04-26 15:28:28 +0000;
  • cee99b9 bump x.y.z version to odd y following creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 16:24:03 +0000;
  • ed54d1a (origin/RELEASE_3_14, RELEASE_3_14) bump x.y.z version to even y prior to creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 16:24:03 +0000;
  • 91a7127 call the function wmwLeadingEdge by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-08-18 14:15:12 +0200;
  • e275069 version bump and Rd update by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-08-18 11:02:50 +0200;
  • 1093a1b update documentation of wmwTest to reflect added parameters by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-08-18 10:35:02 +0200;
  • e7f7a17 version bump by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 17:33:21 +0200;
  • 2d71391 update readGmt and readSignedGmt to ignore empty cells by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 17:33:06 +0200;
  • 4dcd126 Add prettySigNames to prettify signature names by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 17:32:36 +0200;
  • ed6ac5c rename the function loadCurrentSignatures into readCurrentSignatures by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 14:42:02 +0200;
  • 92837db update citation by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 12:20:52 +0200;
  • b5c0cef version bump: we add a new version of the gmt file, extdata/exp.tissuemark.bioqc.roche.symbols.gmt, while keeping the old file extdata/exp.tissuemark.affy.roche.symbols.gmt, for backward compatibility. by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 11:35:43 +0200;
  • 36a413b Merge branch 'master' of git.bioconductor.org:packages/BioQC by Jitao David Zhang <jitao_david.zhang@roche.com> 2021-07-19 11:17:54 +0200;
  • 9eefede bump x.y.z version to odd y following creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 16:16:54 +0000;
  • 1f94f0f (origin/RELEASE_3_13, RELEASE_3_13) bump x.y.z version to even y prior to creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 16:16:54 +0000;
  • b97bb67 a parenthesis too many by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-09 21:34:21 +0100;
  • aff132c fix kidney example link by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-09 21:33:15 +0100;
  • 9961b84 benchmark link updated by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-09 21:31:00 +0100;
  • ad5b8ab put introduction first by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-09 21:28:28 +0100;
  • 81e40e3 fix the broken link to the kidney dataset by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-09 21:25:54 +0100;
  • 51b68ee U1 test (#27) by Iakov Davydov <dav05.gith@myths.ru> 2020-12-09 21:09:20 +0100;
  • 4c793cd add depdency, version bump by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:56:23 +0100;
  • 83e0eae add explanation about U1 and U2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:56:11 +0100;
  • 6058e79 the old U means U2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:55:55 +0100;
  • 9082934 add support for U1 and U2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:55:40 +0100;
  • 0e766ff differentiate between u1 and u2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:55:16 +0100;
  • 045f35e swp files are ignored by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 17:54:37 +0100;
  • 814a742 add limma and RColorBrewer to the list of suggested pkgs by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-08 16:01:57 +0100;
  • 632f92c Fix inverted r and f scores (#26) by Iakov Davydov <dav05.gith@myths.ru> 2020-12-08 14:53:59 +0100;
  • 1401ba7 Fix CI badge (#24) by Gregor Sturm <mail@gregor-sturm.de> 2020-12-08 14:52:58 +0100;
  • 52e3b47 Improve docs (#23) by Gregor Sturm <mail@gregor-sturm.de> 2020-12-06 17:35:20 +0100;
  • dfb9266 Iakov commited important updates with regard to f and r statistic, and adding Iakov to the author list by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 17:00:45 +0100;
  • eb10918 Adding test for common language effect size & rank-biserial correlation (#22) by Iakov Davydov <dav05.gith@myths.ru> 2020-12-04 16:58:22 +0100;
  • 1f82899 S4 methods comes with the default value (p.value) by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 16:49:37 +0100;
  • 9fb7f35 add support for biserial-rank correlation (r) and common language effect size (f) by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 16:32:32 +0100;
  • 23d415e unified by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 15:31:05 +0100;
  • 689bda3 doc updated by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 15:27:41 +0100;
  • 5ee5d7d add biserial-rank correlation coefficient (r) and common language effect size (f) as value types by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 15:25:18 +0100;
  • b079bbb version bump by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 15:29:20 +0100;
  • 1172f34 add biserial-rank correlation coefficient (r) and common language effect size (f) as value types by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-12-04 15:25:18 +0100;
  • 12eb373 bump x.y.z version to odd y following creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 11:09:47 -0400;
  • 93ea3cd (origin/RELEASE_3_12, RELEASE_3_12) bump x.y.z version to even y prior to creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 11:09:46 -0400;
  • 02e9885 man pages updated due to roxygen updates by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-07-23 09:41:29 +0200;
  • c80247e Merge branch 'master' of git.bioconductor.org:packages/BioQC by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-07-23 09:24:53 +0200;
  • c0a62df allow single gsNamespace to be appended to all genesets by Jitao David Zhang <jitao_david.zhang@roche.com> 2020-07-23 09:24:49 +0200;
  • 4298c6d bump x.y.z version to odd y following creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:53:01 +0000;
  • e9a8893 (origin/RELEASE_3_11, RELEASE_3_11) bump x.y.z version to even y prior to creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:53:01 +0000;
  • 9f8e732 automatic line breaking by new roxygens by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-12-12 15:44:56 +0100;
  • d9f2a2f using latest Roxygen by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-12-12 15:44:11 +0100;
  • 4fc929a Makefile based on devtools by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-12-12 15:41:33 +0100;
  • 423017c much faster readGmt files thanks to turning off the isValidity check by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:41:44 +0100;
  • 15d445e export isValid functions by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:41:20 +0100;
  • 3438683 turn off setValidity by default, export the functions so the users can check when they wish by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:36:24 +0100;
  • eebd7a7 add isValid functions by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:36:01 +0100;
  • e30fb79 return a plain list from readSingleGmt by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:35:50 +0100;
  • f68e4e0 using Roxygen 7.0.0, and version bump thanks to improved error message in readSingleGmt by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 16:08:18 +0100;
  • 1578fd6 in case a gmt file does not exist, print its name for easier debugging by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-21 15:57:24 +0100;
  • cdc6a9b Merge branch 'master' of github.com:Accio/BioQC by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-18 11:36:39 +0100;
  • d96f44d new version, with additional shortcut of testing matrix/eSet with SignedGenesets by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-18 11:35:46 +0100;
  • 4e74d54 add new shortcuts to test matrix/eSet directly with SignedGenesets by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-18 11:35:24 +0100;
  • 5e99120 add new examples of testing matrix/eSet with SignedGenesets by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-18 11:35:04 +0100;
  • 2e127d8 Mergenstall branch 'master' of github.com:Accio/BioQC by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-11 09:31:32 +0100;
  • 8325c67 version bump in bioc by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-04 16:12:18 +0100;
  • a96993d GmtList(GmtList) does not remove the names, thanks to the bug report by Iakov Davydov by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-04 16:11:04 +0100;
  • c839f0c in GmtList, names from the old list is copied to the new object by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-11-04 16:10:33 +0100;
  • f13dbaf bump x.y.z version to odd y after creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:40:14 -0400;
  • c49a9cd (origin/RELEASE_3_10, RELEASE_3_10) bump x.y.z version to even y prior to creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:09:31 -0400;
  • 3d36d32 remove md files by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-10-13 09:33:10 +0200;
  • b5394cd version bump, thanks to fixing the error of missing svg by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-10-13 09:28:32 +0200;
  • 90de495 the speedup figure is in the vignette directory by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-10-13 09:28:09 +0200;
  • b123f49 export subsetting methods for GmtList by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-09 09:46:20 +0200;
  • 3c9e240 export subsetting methods of GmtList by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-09 09:46:00 +0200;
  • a666cf3 functions are put in individual R files by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-09 07:33:13 +0200;
  • 9405b1a renamed to as.GmtList by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-09 07:32:45 +0200;
  • 0e1f241 as.gmtlist is now as.GmtList by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-09 07:32:35 +0200;
  • 356923d use org.Hs.eg.db to get human gene symbols instead of hgu133plus2.db by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-08 20:58:49 +0200;
  • f97e9c9 latest run on 8.7.2019 by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-08 20:58:27 +0200;
  • a55a25c latest results, simulation run on 6.7.2019 by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-08 20:57:54 +0200;
  • a3cb110 use org.Hs.eg.db instead of hgu133plus2.db by Jitao David Zhang <davidvonpku@gmail.com> 2019-07-08 20:57:07 +0200;
  • 551bf47 roxygen 6.1.1 is used by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 17:34:55 +0200;
  • adf0f57 run load_all() prior to document to make sure that the package is compiled by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 17:34:40 +0200;
  • 930ae50 appendGmtList is documented automatically by roxygen2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 16:00:57 +0200;
  • 8705dfb add appendGmtList by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 16:00:46 +0200;
  • 7d53fb1 add tests about namespace by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:44:17 +0200;
  • b274e80 readGmt interprets NULL as no namespace, instead of using base file name by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:44:00 +0200;
  • c6f003e printing method is improved: only one catHead is printed by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:43:25 +0200;
  • 3b188e5 version 1.13.2 by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:24:10 +0200;
  • ea7c45d category is replaced by namespace, and the version is bumped by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:23:33 +0200;
  • 63b8244 category is replaced by the concept of namespace by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 15:22:57 +0200;
  • 049c59e document category by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 14:44:29 +0200;
  • 8e8a08f GmtList prints categories if present by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-08 14:44:14 +0200;
  • e2dd4b8 remove outdated coverage files (coverage is performed by TravisCI), and update NEWS by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-02 14:04:06 +0200;
  • 836ad8c gsCategory is properly documented now by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-02 14:01:12 +0200;
  • c3c69e9 use r-lib by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-02 13:43:44 +0200;
  • 2fe6cc4 (1) codecov from covr (2) use UTF-8 as the encoding by Jitao David Zhang <jitao_david.zhang@roche.com> 2019-07-02 13:42:30 +0200;