1. TVTB
  2. Graph
Graph of TVTB
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  • 9b5085b (HEAD -> devel, origin/master, origin/devel, origin/HEAD) 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 10:15:23 -0400;
  • 362272d (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 10:15:23 -0400;
  • 210fbfb (origin/RELEASE_3_19, RELEASE_3_19) fix release 3_19 (#16) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2024-07-07 12:29:47 +0100;
  • e7511fe fix the shiny app (#15) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2024-07-05 13:01:49 +0100;
  • 1a281a0 Change github action workflow (#14) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2024-07-04 22:11:40 +0100;
  • 95b05a6 merge master to devel by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2024-07-04 17:17:24 +0100;
  • 2de7232 rescue parseCSQToGRanges from ensemblVEP (#12) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2024-07-04 16:41:38 +0100;
  • ddaaabe 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 10:54:47 -0400;
  • 1df2c1e 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 10:54:47 -0400;
  • 5799fe9 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 10:53:51 -0400;
  • 4bc60c2 (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 10:53:50 -0400;
  • 082ad90 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 10:50:43 -0400;
  • f28d805 (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 10:50:43 -0400;
  • 29ddae8 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 11:14:45 -0400;
  • 617292c (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 11:14:45 -0400;
  • cfea192 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 15:37:05 +0000;
  • 19e4f04 (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 15:37:05 +0000;
  • 9cb742d 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 16:31:08 +0000;
  • 5332bf5 (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 16:31:08 +0000;
  • 45e1709 Fix logical operand (#10) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2021-08-30 18:11:36 +0100;
  • a2c78cd 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 16:24:09 +0000;
  • 954f99a (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 16:24:09 +0000;
  • 03543a2 Add renv to ignore files (#7) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-11-04 13:54:11 +0000;
  • eb43460 Set up GItHub Actions; Remove Travis; Set up Docker; Update README(#6) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-11-04 13:52:53 +0000;
  • 48fa2df 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 11:19:03 -0400;
  • e73ba32 (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 11:19:03 -0400;
  • a83e3d3 resync with S4Vectors 0.27.12 by Hervé Pagès <hpages@fredhutch.org> 2020-06-08 17:20:44 -0700;
  • 0427920 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 19:03:13 +0000;
  • 054dc1d (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 19:03:13 +0000;
  • 90c3979 Merge branch 'master' of git.bioconductor.org:packages/TVTB by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-04-11 14:47:39 +0100;
  • 06fbea7 Bump 1.13.2 by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-04-11 14:42:28 +0100;
  • b4c3fde move from Travis to GitHub Actions by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-04-10 09:58:19 +0100;
  • a0967c6 switch vignette to html format by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2020-04-10 08:58:43 +0100;
  • 55419c5 parallelSlotNames() was renamed vertical_slot_names() in S4Vectors 0.25.14 by Hervé Pagès <hpages@fredhutch.org> 2020-03-23 23:33:58 -0700;
  • 687fef8 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 13:42:09 -0400;
  • e5a478b 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 13:10:13 -0400;
  • a621313 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 12:14:00 -0400;
  • 195c068 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 11:54:04 -0400;
  • 9f387ca parallelSlotNames() was renamed vertical_slot_names() in S4Vectors 0.25.14 by Hervé Pagès <hpages@fredhutch.org> 2020-03-23 23:33:58 -0700;
  • 626084e 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 13:42:09 -0400;
  • 09eb141 (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 13:10:13 -0400;
  • e3084e1 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 12:14:00 -0400;
  • 9d486bd (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 11:54:04 -0400;
  • f80c02c oops by Kevin RUE <kevinrue67@gmail.com> 2019-02-20 10:30:35 +0000;
  • de4dfb2 Merge pull request <a href="#1">#1</a> from kevinrue/test by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2019-01-15 11:59:58 +0000;
  • 8f26e62 version bump and date by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2019-01-15 10:49:10 +0000;
  • aadcf1e update Travis YAML from iSEE by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2019-01-15 10:38:49 +0000;
  • 3302f33 declare prototype for all slots by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2019-01-15 10:24:28 +0000;
  • 6fe97cc bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:36 -0400;
  • 67e1b0c (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 11:42:03 -0400;
  • 1865392 no need for biocManager by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-07-20 23:36:28 +0100;
  • a4a2af4 no need to restrict tested branches by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-07-20 23:32:23 +0100;
  • d882e99 removed mentions of biocLite by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-07-20 23:30:58 +0100;
  • 3bf8abf bump x.y.z versions to odd y after creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:41:42 -0400;
  • ebd23ac (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 10:35:44 -0400;
  • cb0c12a proper fix following Herve's advice by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-02-25 00:15:42 +0000;
  • b706884 subsetting by [i,j] does not throw an error: intended by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-02-24 20:13:52 +0000;
  • 2c6e159 fix: explicitly test min(start/end) of IRange; subsetting FilterRules by [i,j] does not throw an error anymore by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-02-24 18:35:40 +0000;
  • 113ec21 chunk output in console (convenience) by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-02-24 18:34:10 +0000;
  • 69d5c6b more stable links; removed deprecated links to Bioc-mirror and codecov by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2018-02-24 10:34:27 +0000;
  • 9663b7c The path() generic has moved from Rsamtools to BiocGenerics. Import it from this new location. by Hervé Pagès <hpages@fredhutch.org> 2017-12-20 12:51:54 -0800;
  • b1ce546 Some tweaks in order to make `[[<-` work again on a VcfFixedRules, VcfInfoRules, VcfVepRules, or VcfFilterRules object, after the major refactoring of [[<- for List objects in S4Vectors 0.17.4. Note that, before this refactoring, `[[<-` was not (and is still not) working properly in some situations on a VcfFilterRules object. by Hervé Pagès <hpages@fredhutch.org> 2017-11-20 17:27:51 -0800;
  • dd14860 bump x.y.z versions to odd y after creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:54:22 -0400;
  • 07d3a97 (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 12:41:23 -0400;
  • 5f901d9 test Travis integration with branch CI by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2017-09-06 11:49:38 +0100;
  • d00a5af test AppVeyor continuous integration with R_release by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2017-09-06 11:47:00 +0100;
  • d92eaee update for BiocStyle 2.5.19 by Kevin Rue-Albrecht <kevinrue67@gmail.com> 2017-09-06 10:12:31 +0100;
  • 459b69f fix Shiny app: import variants from multiple VCF files by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2017-05-30 14:43:53 +0000;
  • 50da149 bump x.y.z versions to odd y after creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:50:57 +0000;
  • 7e793b0 (origin/RELEASE_3_5, RELEASE_3_5) Creating branch for BioC 3.5 release by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:45:44 +0000;
  • 10af547 bump x.y.z versions to even y prior to creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:25:24 +0000;
  • 7bbb46a GRangesFilter does not support condition argument anymore by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2017-04-10 20:45:13 +0000;
  • e85da69 Updated NAMESPACE to reflect update of AnnotationFilter and ensembldb packages. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2017-04-08 14:48:04 +0000;
  • 26ff1f9 Bug fix in plotInfo; use AAF in Introduction vignette. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-18 12:22:14 +0000;
  • 35d42c3 New argument zero.rm in method plotInfo to hide data points with value of zero on the Y axis by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-18 10:28:01 +0000;
  • a827826 New method pairsInfo; Bug fix to detected metric columns for plotInfo and pairsInfo by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-14 16:06:38 +0000;
  • 818c23d Plotting type can be selected for plotInfo data track. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-11 11:11:58 +0000;
  • 1a39c37 Fixed NEWS. Updated release date in DESCRIPTION; AppVeyor badge in README;. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-10 15:59:08 +0000;
  • 0f7645e Version 1.1.6. New plotInfo method; ADH1B gene example added. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-10 15:36:10 +0000;
  • a47a942 Version 1.1.5: bug fixes and added setting autodetectGTimport to tSVE method by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-07 13:55:33 +0000;
  • a2307b8 version bump to try and force Bioconductor-mirror to show latest code rather than v 0.1.7 by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 16:39:34 +0000;
  • 16d8131 deleted deprecated and misc files by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 16:15:42 +0000;
  • 95d17ac SVN ignore .Rproj.user folder. Added TVTB.Rproj settings by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 16:12:50 +0000;
  • 4453986 deleted commented lines by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 15:18:36 +0000;
  • b5638bb Merge branch 'master' into devel by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 12:10:12 +0000;
  • 14898a7 Merge branch 'master' into devel by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 12:10:09 +0000;
  • 0840c09 space by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:59 +0000;
  • ddb9272 Remove commented lines by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:56 +0000;
  • e98d535 version bump by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:53 +0000;
  • 8d07b05 tSVE sets options("width") by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:49 +0000;
  • 0607265 Local version bump; genotype heatmap height setting in tSVE; only test NA genotypes if non-empty vectors; genotype matrix height setting in tSVE; do not catch warning as error when parsing VCF; fixed a couple of NAMESPACE calls in tSVE. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:44 +0000;
  • 6dd77a4 Update README.md by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:40 +0000;
  • a6bf255 Massive commit. Major changes: Shiny app uses more reactiveValues to manage errors and objects, Genotypes and TVTBparam classes can be initialised with empty vectors of genotypes (warning), new autodetecteGenotypes method to populate said genotypes vectors after importing variants, vectors returns GRanges instead of data.frame, constructors for TVTBparam and Genotypes are regular functions instead of S4. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:30 +0000;
  • dbef1b8 little clarification in README by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:17 +0000;
  • 64f095e Disable install_github for packages now available from repository. by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:13 +0000;
  • 80adf13 RTOOLS enabled by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:10 +0000;
  • 0d2ebd7 Bioconductor-mirror/ensembldb (builed failed on Windows bioc-3.5) by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:07 +0000;
  • faca816 biocLite of some package as suggested by Ioannis by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:03 +0000;
  • 2f654f4 install_github takes only one package at a time by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:50:00 +0000;
  • c2bd590 did install_github introduce bug;only master branch; only x64 arch by Kevin Rue-Albrecht <kevin.rue@ucdconnect.ie> 2016-11-04 10:49:56 +0000;