Bioconductor Code: AneuFinder

Graph of AneuFinder

c4b7a76 (HEAD -> devel, origin/devel, origin/HEAD) Deprecate by lshep <lori.shepherd@roswellpark.org> 2025-03-26 11:12:56 -0400;
42b7837 (origin/master) bump x.y.z version to odd y following creation of RELEASE_3_20 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2024-10-29 10:08:55 -0400;
b69e323 (origin/RELEASE_3_20, RELEASE_3_20) bump x.y.z version to even y prior to creation of RELEASE_3_20 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2024-10-29 10:08:55 -0400;
0fb90c6 bump x.y.z version to odd y following creation of RELEASE_3_19 branch by J Wokaty <jwokaty@users.noreply.github.com> 2024-04-30 10:49:35 -0400;
c7a1f18 (origin/RELEASE_3_19, RELEASE_3_19) bump x.y.z version to even y prior to creation of RELEASE_3_19 branch by J Wokaty <jwokaty@users.noreply.github.com> 2024-04-30 10:49:35 -0400;
b8d11a4 bump x.y.z version to odd y following creation of RELEASE_3_18 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2023-10-24 10:48:50 -0400;
f0c9ccf (origin/RELEASE_3_18, RELEASE_3_18) bump x.y.z version to even y prior to creation of RELEASE_3_18 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2023-10-24 10:48:50 -0400;
ec8363a 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 10:45:33 -0400;
e17d810 (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 10:45:33 -0400;
b38bf17 fixed docstrings and removed reorder.by.class by a.taudt <aaron.taudt@gmail.com> 2023-04-04 08:46:06 +0200;
26d5dbb fixed docstrings and removed reorder.by.class by a.taudt <aaron.taudt@gmail.com> 2023-04-04 08:42:28 +0200;
02f3522 Merge remote-tracking branch 'origin/master' into devel by a.taudt <aaron.taudt@gmail.com> 2023-03-26 14:18:29 +0200;
c3dafa1 removed end-of-life ReorderCluster dependency by ataudt <aaron.taudt@gmail.com> 2023-03-16 08:38:31 +0100;
340387c 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 11:13:19 -0400;
7cd59a1 (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 11:13:19 -0400;
0cbba40 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 15:30:40 +0000;
4c6906e (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 15:30:40 +0000;
ac1bba4 Pass serialized S4 instances thru updateObject() by Hervé Pagès <hpages.on.github@gmail.com> 2021-11-18 16:23:58 -0800;
c96da32 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 16:26:30 +0000;
ea0beb3 (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 16:26:30 +0000;
887753a 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 16:19:05 +0000;
1c7aed6 (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 16:19:05 +0000;
aee8641 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 11:12:55 -0400;
76ec9af (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 11:12:55 -0400;
e64f35e 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 18:55:57 +0000;
ba2e82e (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 18:55:57 +0000;
ee09db3 bugfix fetchExtendedChromInfoFromUCSC -> getChromInfoFromUCSC by ataudt <aaron.taudt@gmail.com> 2020-04-11 19:46:19 +0200;
9dfdba3 added thesis reference and GC-correction section in vignette by ataudt <aaron.taudt@gmail.com> 2020-03-17 16:04:33 +0100;
f69b1b9 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 13:40:43 -0400;
536431e (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 13:09:36 -0400;
14c6e03 The %in% generic is now defined in the BiocGenerics package by Hervé Pagès <hpages@fredhutch.org> 2019-10-02 23:35:21 -0700;
e788fd0 (origin/RELEASE_3_9, RELEASE_3_9) version bump to 1.12.1 by ataudt <aaron.taudt@gmail.com> 2019-07-20 12:41:41 +0200;
72983a2 moved ggplot2 from Imports to Depends by ataudt <aaron.taudt@gmail.com> 2019-07-20 12:32:58 +0200;
43a20db merge with Bioconductor upstream by ataudt <aaron.taudt@gmail.com> 2019-07-20 12:27:56 +0200;
d7aa3bd bump x.y.z versions to odd y after creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 12:13:20 -0400;
03b8310 bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 11:54:01 -0400;
fa4d9be updated README by ataudt <aaron.taudt@gmail.com> 2019-02-13 19:38:08 +0100;
56578ae (origin/RELEASE_3_8, RELEASE_3_8) Add ImmunoOncology biocViews term by Kayla-Morrell <kayla.morrell@roswellpark.org> 2019-01-04 13:19:03 -0500;
f825933 Add ImmunoOncology biocViews term by Kayla-Morrell <kayla.morrell@roswellpark.org> 2019-01-04 13:18:52 -0500;
d145d34 bumped version to 1.10.1 by ataudt <aaron.taudt@gmail.com> 2018-11-17 09:29:23 +0100;
04b7ca1 fixed dfplot.seg not found bug by ataudt <aaron.taudt@gmail.com> 2018-11-17 09:11:37 +0100;
e7af064 bumped version to 1.11.1 by ataudt <aaron.taudt@gmail.com> 2018-11-17 09:13:10 +0100;
62ed280 fixed dfplot.seg not found bug by ataudt <aaron.taudt@gmail.com> 2018-11-17 09:11:37 +0100;
4090898 bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:35 -0400;
8a72e02 bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:42:00 -0400;
6c94ae3 replace BiocInstaller biocLite mentions with BiocManager by LiNk-NY <mramos09@gmail.com> 2018-08-28 18:51:11 -0400;
adb7443 bump x.y.z versions to odd y after creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:41:41 -0400;
36a729d (origin/RELEASE_3_7, RELEASE_3_7) bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:35:41 -0400;
85564ae corrected help file links by ataudt <aaron.taudt@gmail.com> 2018-04-18 10:10:15 +0200;
03fd55a fixed file links in man pages by ataudt <aaron.taudt@gmail.com> 2018-04-13 10:29:59 +0200;
f85b9b6 fixed file links in man pages by ataudt <aaron.taudt@gmail.com> 2018-04-13 10:26:01 +0200;
50c397f use lengths(x) instead of sapply(x , length) by Hervé Pagès <hpages@fredhutch.org> 2018-02-08 21:49:19 -0800;
a990d52 remove PDF version of vignette (does not belong to the git source tree) by Hervé Pagès <hpages@fredhutch.org> 2018-02-08 21:33:15 -0800;
5af57b0 use is(x, "GRangesList") instead of class(x) == "GRangesList" by Hervé Pagès <hpages@fredhutch.org> 2018-02-08 21:15:02 -0800;
eaad87d reorder exported files as in heatmapGenomewide by chakalakka <a.s.taudt@umcg.nl> 2017-12-20 13:26:33 +0100;
42e361e bugfix in confidenceIntervals by chakalakka <a.s.taudt@umcg.nl> 2017-12-20 12:49:21 +0100;
16a81af updated vignette pdf by chakalakka <a.s.taudt@umcg.nl> 2017-12-08 10:37:37 +0100;
e7d3fa2 fixed rownames bug in karyotypeMeasures by chakalakka <a.s.taudt@umcg.nl> 2017-12-08 10:30:16 +0100;
464e1c1 modified vignette by chakalakka <a.s.taudt@umcg.nl> 2017-12-08 10:05:39 +0100;
b26abc7 fixed example in heatmapGenomewideClusters by chakalakka <a.s.taudt@umcg.nl> 2017-12-08 09:52:14 +0100;
9389681 added hotspotter.variable by chakalakka <a.s.taudt@umcg.nl> 2017-12-06 08:47:04 +0100;
1bd9a03 properly sorted legend in heatmapAneuploidies by chakalakka <a.s.taudt@umcg.nl> 2017-12-01 14:28:52 +0100;
d2244ff properly sorted legend in heatmapGenomewide by chakalakka <a.s.taudt@umcg.nl> 2017-12-01 14:21:52 +0100;
0ee1561 distributions$both for HMM TODO by chakalakka <a.s.taudt@umcg.nl> 2017-12-01 11:49:29 +0100;
a3b412b skip non-appearing distributions by chakalakka <a.s.taudt@umcg.nl> 2017-12-01 11:34:08 +0100;
e22ce89 fix seed for dnacopy, distributions$both entry by chakalakka <a.s.taudt@umcg.nl> 2017-12-01 10:54:39 +0100;
1bcea1e export findHotspots by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 15:58:22 +0100;
2e9e9f1 findHotspots by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 15:19:08 +0100;
d0c18f2 findHotspots by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 15:07:04 +0100;
2ceb1eb updated README by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 12:08:28 +0100;
2c8c7a9 updated README by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 12:05:08 +0100;
649846e updated README by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 12:03:47 +0100;
d690773 Merge branch 'stepsize' of https://github.com/ataudt/aneufinder by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 12:02:09 +0100;
5d3824d merge with branch stepsize by chakalakka <a.s.taudt@umcg.nl> 2017-11-30 11:59:51 +0100;
c0b0cfd bugfix for dpois by chakalakka <a.s.taudt@umcg.nl> 2017-11-29 17:29:33 +0100;
a8814bc added bioc tags by chakalakka <a.s.taudt@umcg.nl> 2017-11-25 16:08:38 +0100;
699367f added bioc tags by chakalakka <a.s.taudt@umcg.nl> 2017-11-25 16:03:20 +0100;
b9c7ab8 karyotypeMeasures for aneuBiHMM by chakalakka <a.s.taudt@umcg.nl> 2017-11-24 11:06:41 +0100;
347bf8f fixed seed for e.divisive by chakalakka <a.s.taudt@umcg.nl> 2017-11-24 10:19:08 +0100;
31578a1 endoapply() is now a regular function (defined in S4Vectors) instead of a generic function. by Hervé Pagès <hpages@fredhutch.org> 2017-11-17 12:51:18 -0800;
2657e8a small fix by chakalakka <a.s.taudt@umcg.nl> 2017-11-02 08:02:16 +0100;
7717877 bump x.y.z versions to odd y after creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:54:19 -0400;
0cfbdd1 (origin/RELEASE_3_6, RELEASE_3_6) bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:41:14 -0400;
4081486 fixed normalize.counts in plot by chakalakka <a.s.taudt@umcg.nl> 2017-10-29 11:38:29 +0100;
8c8fd83 speed up of edivisive, no segmentation by chakalakka <a.s.taudt@umcg.nl> 2017-10-28 10:59:14 +0200;
479a474 Merge remote-tracking branch 'upstream/master' by chakalakka <a.s.taudt@umcg.nl> 2017-10-27 12:19:08 +0200;
b86be37 edivisive is now default method by chakalakka <a.s.taudt@umcg.nl> 2017-10-27 12:05:12 +0200;
7442ebb GC correction with bins by chakalakka <a.s.taudt@umcg.nl> 2017-10-26 16:12:48 +0200;
ea76978 export clusterHMMs and heatmapGenomewideClusters for clones by chakalakka <a.s.taudt@umcg.nl> 2017-10-26 14:47:05 +0200;
602e9f9 removed old fine mapping of SCE by chakalakka <a.s.taudt@umcg.nl> 2017-10-23 10:56:13 +0200;
59ba09e added comment by chakalakka <a.s.taudt@umcg.nl> 2017-10-21 08:46:49 +0200;
afec0cd small fixes by chakalakka <a.s.taudt@umcg.nl> 2017-10-20 19:47:00 +0200;
b6640e5 breakpoint detection for strandseq=FALSE by chakalakka <a.s.taudt@umcg.nl> 2017-10-20 15:56:52 +0200;
4845ec1 breakpoint detection for strandseq=FALSE by chakalakka <a.s.taudt@umcg.nl> 2017-10-20 15:54:45 +0200;
fe4de1d breakpoint detection for strandseq=FALSE and simplified Aneufinder() code by chakalakka <a.s.taudt@umcg.nl> 2017-10-20 15:03:49 +0200;
ec016ad error when stepsize > binsize by chakalakka <a.s.taudt@umcg.nl> 2017-10-20 09:14:20 +0200;
467be76 more biocViews by chakalakka <a.s.taudt@umcg.nl> 2017-10-06 14:00:37 +0200;
73b1269 reorganized getSegments into clusterHMMs by chakalakka <a.s.taudt@umcg.nl> 2017-10-06 13:01:06 +0200;
3abcb89 renamed changepoint to edivisive by chakalakka <a.s.taudt@umcg.nl> 2017-09-18 14:03:39 +0200;
e2847ff improved plotting in correctGC by chakalakka <a.s.taudt@umcg.nl> 2017-09-15 14:39:13 +0200;