1. bsseq
  2. Graph
Graph of bsseq
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  • ed8b19c (HEAD -> master, origin/master, origin/HEAD) 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 11:07:09 -0400;
  • 98239c0 (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 11:07:09 -0400;
  • 67c93e4 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 15:11:30 +0000;
  • a0c1eac (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 15:11:30 +0000;
  • b9e8130 Use && instead of & in if condition by Hervé Pagès <hpages.on.github@gmail.com> 2021-11-01 18:52:48 -0700;
  • cad6343 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 16:03:49 +0000;
  • 7eb5223 (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 16:03:49 +0000;
  • facefd5 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 15:53:03 +0000;
  • 57084fa (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 15:53:03 +0000;
  • 83564cb resync with HDF5Array 1.19.11 by Hervé Pagès <hpages.on.github@gmail.com> 2021-04-25 22:55:03 -0700;
  • 2408c92 Update serialized BSseq object BS.chr22 by Hervé Pagès <hpages.on.github@gmail.com> 2021-04-05 18:37:29 -0700;
  • 1aa857c more environment fix by kasperdanielhansen <kasperdanielhansen@gmail.com> 2021-03-23 09:07:57 +0100;
  • 72bf72b fixing a test error by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2021-03-16 00:01:13 +0100;
  • aa2086e bugfix (requiring changing all.equal(--) to all.equal(--, check.environment=FALSE)) in combineList() by kasperdanielhansen <kasperdanielhansen@gmail.com> 2021-02-09 10:35:19 +0100;
  • e0089b4 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 10:46:25 -0400;
  • fae3229 (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 10:46:25 -0400;
  • 89ac286 resync with DelayedArray 0.15.16 by Hervé Pagès <hpages.on.github@gmail.com> 2020-10-08 22:05:28 -0700;
  • cc82900 a couple of leftovers from recent renamings by Hervé Pagès <hpages@fredhutch.org> 2020-09-26 18:34:11 -0700;
  • 49fd88d Resync with DelayedArray 0.15.10 by Hervé Pagès <hpages@fredhutch.org> 2020-09-26 18:24:50 -0700;
  • 8fe7a03 (origin/RELEASE_3_11, RELEASE_3_11) Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-29 11:23:15 +1000;
  • 29e5875 Re-enable tests on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-29 11:20:15 +1000;
  • f2728b7 Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-29 11:21:07 +1000;
  • 2eafdd6 Bump minimum versions of dependencies by Peter Hickey <peter.hickey@gmail.com> 2020-06-29 11:21:02 +1000;
  • f134643 Re-enable tests on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-29 11:20:15 +1000;
  • d336f4c Resync with latest internal changes to S4Vectors and IRanges by Hervé Pagès <hpages@fredhutch.org> 2020-06-08 18:36:15 -0700;
  • 01965f8 Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-04 13:07:51 +1000;
  • c20e5bf Another attempt to fix links in Rd files to quieten R CMD check on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-04 13:06:19 +1000;
  • fd51762 Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-04 13:06:29 +1000;
  • b0c2777 Another attempt to fix links in Rd files to quieten R CMD check on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-04 13:06:19 +1000;
  • 3842a9d Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-01 19:42:06 +1000;
  • be53210 Fix links in Rd files to quieten R CMD check on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-01 19:35:56 +1000;
  • 4a7fb5c Version bump by Peter Hickey <peter.hickey@gmail.com> 2020-06-01 19:36:15 +1000;
  • e1e0c9e Fix links in Rd files to quieten R CMD check on Windows by Peter Hickey <peter.hickey@gmail.com> 2020-06-01 19:35:56 +1000;
  • fc4e9f8 Repair subsetByOverlaps() on hasGRanges derivatives by Hervé Pagès <hpages@fredhutch.org> 2020-05-20 15:23:58 -0700;
  • 659aee2 Repair subsetByOverlaps() on hasGRanges derivatives by Hervé Pagès <hpages@fredhutch.org> 2020-05-20 15:23:58 -0700;
  • 7a12784 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 18:30:19 +0000;
  • 070662a 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 18:30:19 +0000;
  • 674e7a4 Woops, skipped the wrong test with previous commit by Peter Hickey <peter.hickey@gmail.com> 2020-04-24 14:34:15 +1000;
  • 841ce47 Skip Windows-specific failing test by PeteHaitch <peter.hickey@gmail.com> 2020-04-24 13:23:25 +1000;
  • 43961f7 bumping version by kasperdanielhansen <kasperdanielhansen@gmail.com> 2020-04-06 12:21:59 -0400;
  • 56e4d81 Accomodate for change to class(matrix()) in R 4.0 by Hervé Pagès <hpages@fredhutch.org> 2020-03-24 00:29:35 -0700;
  • 59617ab parallelSlotNames() was renamed vertical_slot_names() in S4Vectors 0.25.14 by Hervé Pagès <hpages@fredhutch.org> 2020-03-23 23:15:16 -0700;
  • b2e70be 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 13:36:17 -0400;
  • d4f7301 (origin/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 13:08:33 -0400;
  • 8691f7a Use S4Vectors:::normarg_names() instead of S4Vectors:::normalize_names_replacement_value() by Hervé Pagès <hpages@fredhutch.org> 2019-06-12 08:24:37 -0700;
  • 4f0bfd9 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 12:11:13 -0400;
  • 07e398b (origin/RELEASE_3_9, RELEASE_3_9) 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 11:53:37 -0400;
  • 66219bf Version bump by Peter Hickey <peter.hickey@gmail.com> 2019-04-23 11:34:09 +0900;
  • 7365b18 Add .colsum() and .rowsum() by Peter Hickey <peter.hickey@gmail.com> 2019-04-23 11:33:24 +0900;
  • 4d7d7dd Version bump by Peter Hickey <peter.hickey@gmail.com> 2019-04-23 10:24:19 +0900;
  • 5663318 Merge remote-tracking branch 'upstream/master' by Peter Hickey <peter.hickey@gmail.com> 2019-04-23 10:04:08 +0900;
  • 9135fdb Transition to beachmat version 2 by Peter Hickey <peter.hickey@gmail.com> 2019-04-23 10:03:45 +0900;
  • d9114c7 The rowsum() and colsum() generics are now defined in DelayedArray by Hervé Pagès <hpages@fredhutch.org> 2019-01-31 14:38:18 -0800;
  • 3281f31 Update badges in README by Peter Hickey <peter.hickey@gmail.com> 2019-01-23 10:58:19 +1100;
  • c93310e Bump minimum beachmat version on advice of Aaron by Peter Hickey <peter.hickey@gmail.com> 2019-01-15 16:58:24 +1100;
  • bb84a98 Merge remote-tracking branch 'upstream/master' by Peter Hickey <peter.hickey@gmail.com> 2019-01-15 16:55:22 +1100;
  • d654f9b resync with latest changes to HDF5Array package by Hervé Pagès <hpages@fredhutch.org> 2018-12-13 12:18:12 -0800;
  • 0f03825 Merge remote-tracking branch 'bioc/master' by Peter Hickey <peter.hickey@gmail.com> 2018-10-31 07:40:12 +1100;
  • 5ee292a bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:30 -0400;
  • aa2e1a9 (origin/RELEASE_3_8, RELEASE_3_8) bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:41:49 -0400;
  • fb5b6ff added BatchJobs to Suggests by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2018-10-29 22:51:14 -0400;
  • 4321934 typo fix by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2018-10-29 21:38:24 -0400;
  • f411469 adding temporary manpage by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2018-10-29 21:33:23 -0400;
  • b48b73e adding a temporary manpage by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2018-10-29 21:26:28 -0400;
  • c4abf2a fixing warnings by Kasper Daniel Hansen <kasperdanielhansen@gmail.com> 2018-10-29 20:57:46 -0400;
  • 6ec91bb Small tweak to pass tests on Windows by Peter Hickey <peter.hickey@gmail.com> 2018-10-25 07:21:55 +1100;
  • c35c2c6 Fixes for last commit by Peter Hickey <peter.hickey@gmail.com> 2018-10-15 16:46:15 +1100;
  • e0a4750 Close issue <a href="#74">#74</a> by Peter Hickey <peter.hickey@gmail.com> 2018-10-15 16:04:53 +1100;
  • ff02bcf Tighten up .isHDF5BackendBSseqUpdatable() by Peter Hickey <peter.hickey@gmail.com> 2018-10-15 09:45:48 +1100;
  • 3e0adc4 Improvements to read.bismark() by Peter Hickey <peter.hickey@gmail.com> 2018-10-07 14:37:11 +1100;
  • f950d61 Merge branch 'no_delay' by Peter Hickey <peter.hickey@gmail.com> 2018-10-07 14:34:23 +1100;
  • 0180b2b Tweak .getBSseqBackends() by Peter Hickey <peter.hickey@gmail.com> 2018-10-03 21:16:24 +1000;
  • 735566e Small fix by Peter Hickey <peter.hickey@gmail.com> 2018-09-30 12:02:35 +1000;
  • 7563138 Revert to ordinary matrix for BSseqStat and BSseqTstat by Peter Hickey <peter.hickey@gmail.com> 2018-09-30 11:08:13 +1000;
  • fb28afa Version bump by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:47:23 +1000;
  • 5114a80 Merge refactor branch into master by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:17:52 +1000;
  • cc20286 Merge by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:13:04 +1000;
  • 3d8da20 Fix vignette by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:08:44 +1000;
  • 29c575d Tweak and update unit tests by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:08:34 +1000;
  • b8c41a9 Update DESCRIPTION by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:08:03 +1000;
  • ccc3296 Tweak collapseBSseq() by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:07:48 +1000;
  • 5469cca Simplify BSseq() and BSseq validity method, refactor strandCollapse() by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:07:27 +1000;
  • f8b9f93 Add TODO by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:05:59 +1000;
  • a6a3f7f Update docs by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:03:43 +1000;
  • 57cc26c Rename findCytosines as findLoci and document by Peter Hickey <peter.hickey@gmail.com> 2018-09-17 21:02:52 +1000;
  • 3345828 remove useDevel mention by LiNk-NY <mramos09@gmail.com> 2018-09-07 14:03:11 -0400;
  • d70eb2f Re-design collapseBSseq() by Peter Hickey <peter.hickey@gmail.com> 2018-09-04 06:03:52 +1000;
  • e04391b replace BiocInstaller biocLite mentions with BiocManager by LiNk-NY <mramos09@gmail.com> 2018-08-30 13:45:52 -0400;
  • 296c907 Regenerate NAMESPACE by Peter Hickey <peter.hickey@gmail.com> 2018-08-21 13:47:21 +1000;
  • 65e163c Updates for recent changes by Peter Hickey <peter.hickey@gmail.com> 2018-07-20 14:31:21 +1000;
  • 3ee5357 Modify BSmooth() by Peter Hickey <peter.hickey@gmail.com> 2018-07-20 14:30:21 +1000;
  • 045886b Modify read.bismark() by Peter Hickey <peter.hickey@gmail.com> 2018-07-20 14:28:37 +1000;
  • b841efc Update installation instructions in README by Peter Hickey <peter.hickey@gmail.com> 2018-07-18 10:35:25 +1000;
  • f2908a0 Remove deprecated arguments by Peter Hickey <peter.hickey@gmail.com> 2018-07-10 14:39:30 +1000;
  • 673019b Remove temporary file on exit by Peter Hickey <peter.hickey@gmail.com> 2018-07-04 09:36:07 -0400;
  • 0656078 Explicitly gunzip to tempfile() by Peter Hickey <peter.hickey@gmail.com> 2018-07-04 09:24:07 -0400;
  • 868a6f2 Remove readr dependency by Peter Hickey <peter.hickey@gmail.com> 2018-07-03 22:41:15 -0400;
  • 627e033 colGrid() and rowGrid() moved to DelayedMatrixStats as of v1.3.4 by Peter Hickey <peter.hickey@gmail.com> 2018-06-29 10:30:47 -0400;
  • 6a11fba Add TODOs by Peter Hickey <peter.hickey@gmail.com> 2018-06-28 19:34:03 -0400;
  • 1debd55 Don't import stats::qnorm by Peter Hickey <peter.hickey@gmail.com> 2018-06-28 19:33:16 -0400;