Graph of svaRetro
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  • ad2a1b1 (HEAD -> devel, origin/master, origin/devel, origin/HEAD) 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 11:35:56 -0400;
  • b8b34d3 (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 11:35:56 -0400;
  • 2e502a2 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 11:32:17 -0400;
  • 60aa226 (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 11:32:17 -0400;
  • afe429d 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 11:25:33 -0400;
  • 3326991 (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 11:25:33 -0400;
  • 9485c3f update dependencies in readme by jackieduckie <lnyidrn@gmail.com> 2022-06-14 14:53:51 +1000;
  • e9c523d Merge branch 'master' of git.bioconductor.org:packages/svaRetro by jackieduckie <lnyidrn@gmail.com> 2022-06-14 14:44:53 +1000;
  • c825742 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 16:17:57 +0000;
  • 7ec810b (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 16:17:57 +0000;
  • c5f3f5f update github readme by jackieduckie <lnyidrn@gmail.com> 2022-02-10 14:22:06 +1100;
  • 161187b update Bioconductor & version bump by jackieduckie <lnyidrn@gmail.com> 2022-02-10 14:03:46 +1100;
  • d97e1c6 Merge branch 'master' of github.com:PapenfussLab/svaRetro bioconductor update by jackieduckie <lnyidrn@gmail.com> 2022-02-10 13:54:30 +1100;
  • 59e260e adding checks of empty return GRanges by jackieduckie <lnyidrn@gmail.com> 2021-12-11 21:16:28 +1100;
  • f160fb7 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 17:12:07 +0000;
  • c7b9142 (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 17:12:07 +0000;
  • 52e57b3 address reviewer comments: add helpler functions, adjust formats, clean up code and comments by jackieduckie <lnyidrn@gmail.com> 2021-09-03 22:26:46 +1000;
  • a7fcf4d fix bug for gene sym conversion and update test vcf ref (chrM) by jackieduckie <lnyidrn@gmail.com> 2021-08-21 01:15:12 +1000;
  • d59c0d8 Merge remote-tracking branch 'lab/main' by jackieduckie <lnyidrn@gmail.com> 2021-07-29 11:17:26 +1000;
  • 80fb98b update README width limit by jackieduckie <lnyidrn@gmail.com> 2021-07-29 11:13:43 +1000;
  • 2d01d31 ci: change install url by Justin Bedo <cu@cua0.org> 2021-07-29 10:40:50 +1000;
  • f3bec20 fix readme typo by jackieduckie <lnyidrn@gmail.com> 2021-07-29 09:26:20 +1000;
  • f46ce5a Add Nix expressions and CI hook by Justin Bedo <cu@cua0.org> 2021-07-28 21:31:16 +1000;
  • 3ee574f update README by jackieduckie <lnyidrn@gmail.com> 2021-07-22 09:51:43 +1000;
  • 0a96ecc fix vignette error by jackieduckie <lnyidrn@gmail.com> 2021-07-09 15:39:09 +1000;
  • 9b5d585 ver bump by jackieduckie <lnyidrn@gmail.com> 2021-07-09 15:12:55 +1000;
  • dc0971a update vignette by jackieduckie <lnyidrn@gmail.com> 2021-07-09 15:12:39 +1000;
  • 267a530 update gitignore by jackieduckie <lnyidrn@gmail.com> 2021-07-09 14:58:19 +1000;
  • a835302 fix old pkg name in txs2genesym.R by jackieduckie <lnyidrn@gmail.com> 2021-07-09 14:57:33 +1000;
  • d03a255 rtdetect function commented for debugging by jackieduckie <lnyidrn@gmail.com> 2021-07-07 15:15:32 +1000;
  • c821526 vignette update by jackieduckie <lnyidrn@gmail.com> 2021-06-01 13:28:09 +1000;
  • a7069bd vignette update by jackieduckie <lnyidrn@gmail.com> 2021-06-01 13:27:51 +1000;
  • ad43f2f vignette update by jackieduckie <lnyidrn@gmail.com> 2021-06-01 13:08:42 +1000;
  • 6ee79e1 vignette update by jackieduckie <lnyidrn@gmail.com> 2021-06-01 13:03:22 +1000;
  • f5e1242 vignette update by jackieduckie <lnyidrn@gmail.com> 2021-05-31 23:06:59 +1000;
  • 2601909 ver bump by jackieduckie <lnyidrn@gmail.com> 2021-05-31 22:57:14 +1000;
  • 41bb627 edit dependencies by jackieduckie <lnyidrn@gmail.com> 2021-05-31 22:51:53 +1000;
  • 6867789 vignette update by jackieduckie <lnyidrn@gmail.com> 2021-05-31 22:08:19 +1000;
  • 62839ea new pkg name and RT comments by jackieduckie <lnyidrn@gmail.com> 2021-05-26 01:30:09 +1000;
  • 2d62f99 version bump & Description update by jackieduckie <lnyidrn@gmail.com> 2021-05-02 18:08:02 +1000;
  • c9f0de0 version bump by jackieduckie <lnyidrn@gmail.com> 2021-05-02 18:03:43 +1000;
  • 03f56e0 version bump by jackieduckie <lnyidrn@gmail.com> 2021-05-02 17:57:48 +1000;
  • e95f6dd pkg description and vignette error on windows by jackieduckie <lnyidrn@gmail.com> 2021-05-02 17:54:58 +1000;
  • 5ec1be3 version bump by jackieduckie <lnyidrn@gmail.com> 2021-05-02 00:57:56 +1000;
  • a1d2f91 remove irrelevant files by jackieduckie <lnyidrn@gmail.com> 2021-05-02 00:57:00 +1000;
  • 718d6da address build report by jackieduckie <lnyidrn@gmail.com> 2021-05-02 00:00:05 +1000;
  • 3d9c500 test bioconductor by jackieduckie <lnyidrn@gmail.com> 2021-05-01 20:09:38 +1000;
  • 843bc3c remove irrelevant files & add namespaces by jackieduckie <lnyidrn@gmail.com> 2021-05-01 20:01:29 +1000;
  • d1775bb travis setup by jackieduckie <lnyidrn@gmail.com> 2021-04-28 17:24:42 +1000;
  • b1a4ea6 bioc_check by jackieduckie <lnyidrn@gmail.com> 2021-04-28 17:22:10 +1000;
  • 3d0fc1f add NEWS by jackieduckie <lnyidrn@gmail.com> 2021-04-28 17:15:34 +1000;
  • f6806f3 update readme by jackieduckie <lnyidrn@gmail.com> 2021-04-26 21:48:59 +1000;
  • 17e57e8 update ver. by jackieduckie <lnyidrn@gmail.com> 2021-04-26 21:16:28 +1000;
  • 9ac2c9b update version number by jackieduckie <lnyidrn@gmail.com> 2021-04-26 21:06:43 +1000;
  • 5727788 Merge branch 'main' into RTDetect by Ruining Dong <13995001+jackieduckie@users.noreply.github.com> 2021-03-09 16:24:29 +1100;
  • 4c8ae36 Merge pull request <a href="#1">#1</a> from jackieduckie/master by Ruining Dong <13995001+jackieduckie@users.noreply.github.com> 2021-03-09 16:12:40 +1100;
  • b8aeafd visualisation added by jackieduckie <lnyidrn@gmail.com> 2021-03-09 16:11:23 +1100;
  • 3edcf03 vignette updated and pkg check succeeded by jackieduckie <lnyidrn@gmail.com> 2021-03-09 16:03:28 +1100;
  • 1d83efa output format updated by jackieduckie <lnyidrn@gmail.com> 2021-01-11 18:30:19 +1100;
  • 2bcd698 merge README by jackieduckie <lnyidrn@gmail.com> 2020-12-13 23:35:21 +1100;
  • f6561fa Initial commit by Ruining Dong <13995001+jackieduckie@users.noreply.github.com> 2020-12-13 23:09:48 +1100;
  • 5283d21 add tests for event detection functions by jackieduckie <lnyidrn@gmail.com> 2020-10-14 22:57:00 +1100;
  • 1f1d1f5 update vignette and documentation by jackieduckie <lnyidrn@gmail.com> 2020-10-12 09:35:03 +1100;
  • 5b8853d Corrected numtDetect and rtDetect names Refactored numtDetect and rtDetect into their own files by Daniel Cameron <d-cameron@github.com> 2020-08-17 14:27:31 +1000;
  • 84ef765 Merge remote-tracking branch 'remotes/origin/bioconductor-3.10' by Daniel Cameron <d-cameron@github.com> 2020-08-17 14:21:22 +1000;
  • ea3a649 Merge remote-tracking branch 'remotes/upstream/master' by Daniel Cameron <d-cameron@github.com> 2020-08-17 13:44:30 +1000;
  • 75c7fe1 <a href="#30">#30</a> added LICENSE file by Daniel Cameron <d-cameron@users.noreply.github.com> 2020-07-10 12:31:33 +1000;
  • 936a04a 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 19:27:28 +0000;
  • 67e0325 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 19:27:28 +0000;
  • f257431 Fixed package date. by Daniel Cameron <d-cameron@github.com> 2020-04-15 15:30:29 +1000;
  • 01a5b81 bump version number by Daniel Cameron <d-cameron@github.com> 2020-04-15 15:18:31 +1000;
  • f828fc1 Merge pull request <a href="#22">#22</a> from cbrueffer/export_functions by Daniel Cameron <d-cameron@users.noreply.github.com> 2020-04-15 15:17:46 +1000;
  • a1b7b27 Merge pull request <a href="#21">#21</a> from cbrueffer/doc-fixes by Daniel Cameron <d-cameron@users.noreply.github.com> 2020-04-15 15:17:13 +1000;
  • 4afab60 Don't export breakpointGRangesToVCF() yet. by Christian Brueffer <christian@brueffer.io> 2020-04-10 10:46:53 +0100;
  • 49b629c Export a few useful functions. by Christian Brueffer <christian@brueffer.io> 2019-10-21 10:06:15 +0100;
  • 26e4d7b Fix grammar issues and typos in the vingette and function documentation. by Christian Brueffer <christian@brueffer.io> 2019-09-27 20:04:25 +0100;
  • 169eede Fixes simpleEvent*() for breakend-only GRanges by Daniel Cameron <d-cameron@github.com> 2020-04-08 15:07:17 +1000;
  • 3c7d8db Fixed error in findInsDupOverlaps() by Daniel Cameron <d-cameron@github.com> 2020-04-08 13:42:16 +1000;
  • 8cd0209 Added findInsDupOverlaps(), simpleEventType(), and simpleEventLength() functions. by Daniel Cameron <d-cameron@github.com> 2020-04-08 13:12:56 +1000;
  • 807d4be modification of how insertion sites are handled by jackieduckie <lnyidrn@gmail.com> 2020-03-16 02:16:01 +1100;
  • 1b5d844 wip: add support for single exon RT detection. by jackieduckie <lnyidrn@gmail.com> 2020-02-25 16:30:00 +1100;
  • b23fcb0 Add simRT logs for HG002 by jackieduckie <lnyidrn@gmail.com> 2020-02-19 15:49:26 +1100;
  • 55c823b Merge branch 'bioconductor-3.10' of https://github.com/PapenfussLab/StructuralVariantAnnotation into bioconductor-3.10 by jackieduckie <lnyidrn@gmail.com> 2020-02-17 10:21:51 +1100;
  • 1cc415a gnomadSV result by jackieduckie <lnyidrn@gmail.com> 2020-02-17 10:21:25 +1100;
  • 90f631a simSV analysis by jackieduckie <lnyidrn@gmail.com> 2020-02-17 00:18:43 +1100;
  • f163150 results of simSV rt detection by jackieduckie <lnyidrn@gmail.com> 2020-02-15 17:37:53 +1100;
  • 94a2f62 sim sv regions by jackieduckie <lnyidrn@gmail.com> 2020-02-07 16:50:13 +1100;
  • 814390c prepare simsv generation with bamsurgeon by jackieduckie <lnyidrn@gmail.com> 2020-02-07 16:32:19 +1100;
  • da62ab7 ignore GRIPper folder by jackieduckie <lnyidrn@gmail.com> 2020-01-31 20:51:18 +1100;
  • fd55ce4 update rtDetec and add comparison with GRIPper results by jackieduckie <lnyidrn@gmail.com> 2020-01-31 20:44:40 +1100;
  • 4badd2b call rtDetect on HG00514 by jackieduckie <lnyidrn@gmail.com> 2020-01-13 15:58:05 +1100;
  • 7228f67 add .Rproj file to sync project to server by jackieduckie <lnyidrn@gmail.com> 2020-01-13 10:49:15 +1100;
  • 2dfa359 adding rtDetec plots by jackieduckie <lnyidrn@gmail.com> 2020-01-12 20:32:46 +1100;
  • 16ab360 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 13:43:35 -0400;
  • 2d91969 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 13:11:42 -0400;
  • 499e7b9 removing bug of tx_name not matching with bps by jackieduckie <lnyidrn@gmail.com> 2019-10-28 16:48:36 +1100;
  • 23b648a rtDetec and numtDetec by jackieduckie <lnyidrn@gmail.com> 2019-10-28 09:57:38 +1100;
  • baadd66 Added breakpointRanges(inferMissingBreakends) parameter to handle VCFs that only write one of the two required BND records by Daniel Cameron <d-cameron@github.com> 2019-08-13 16:43:00 +1000;
  • 5269162 Create CODE_OF_CONDUCT.md by Daniel Cameron <d-cameron@users.noreply.github.com> 2019-08-01 16:40:56 +1000;
  • 72d4dd9 Update README.md by Ruining Dong <13995001+jackieduckie@users.noreply.github.com> 2019-07-08 17:12:39 +1000;