1. sitePath
  2. Graph
Graph of sitePath
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  • b10dde3 (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 11:12:33 -0400;
  • b07adee (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 11:12:33 -0400;
  • aa898ed 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 11:09:09 -0400;
  • a060045 (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 11:09:09 -0400;
  • 8aa4bfd 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 11:19:34 -0400;
  • 3cc4480 (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 11:19:34 -0400;
  • 7b9e131 Merge remote-tracking branch 'upstream/master' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-05-26 02:50:49 +0000;
  • a951da1 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 15:54:18 +0000;
  • c20f75e (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 15:54:18 +0000;
  • 10b734f Update README by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 14:14:57 +0000;
  • 4361778 Update README by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 13:42:20 +0000;
  • 7a842eb (origin/RELEASE_3_14, RELEASE_3_14) Merge branch 'master' into RELEASE_3_14 by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 08:22:17 +0000;
  • c4a7295 Update NEWS and DESCRIPTION; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 08:19:28 +0000;
  • d848519 'extractTips' function for 'sitesMinEntropy' object by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 08:09:54 +0000;
  • 7836cfc Update README; Usage of 'lineagePath' and 'paraFixSites' on 'phylo' and 'treedata' object by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-26 02:21:13 +0000;
  • fac50b6 More functions for 'sitesMinEntropy' object by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-25 08:27:47 +0000;
  • f54b353 More functions for 'paraFixSites' object; add '.checkMinEffectiveSize' internal function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-25 01:42:37 +0000;
  • f609f0b Update NEWS and DESCRIPTION; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-20 08:14:39 +0000;
  • 6a55773 Update README by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-20 01:04:19 +0000;
  • e37b42c Move the simpler vignettes to READMEN by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 15:40:37 +0000;
  • e721e8f Add a simpler vignette by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 15:12:05 +0000;
  • 552db39 Add 'plotFixationSites' and 'plotParallelSites'; add print function for 'alignment' object by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 13:25:06 +0000;
  • 726411b Core number set to 1 will disable multiprocessing by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 11:55:29 +0000;
  • 6ecad3b 'biocthis' version 1.5.0 generated GHA by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 03:20:49 +0000;
  • 0167f95 Update README and vignettes by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 03:16:26 +0000;
  • 36cd6c6 Update NEWS and DESCRIPTION; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-20 05:47:19 +0000;
  • 70c5a4b Update README by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-20 01:04:19 +0000;
  • a276ccd Move the simpler vignettes to READMEN by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 15:40:37 +0000;
  • f1b2afa Add a simpler vignette by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 15:12:05 +0000;
  • f1068c9 Add 'plotFixationSites' and 'plotParallelSites'; add print function for 'alignment' object by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 13:25:06 +0000;
  • 0d07c6c Core number set to 1 will disable multiprocessing by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 11:55:29 +0000;
  • 5208932 'biocthis' version 1.5.0 generated GHA by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 03:20:49 +0000;
  • 8a0438f Update README and vignettes by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2022-01-19 03:16:26 +0000;
  • a3039a6 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 16:50:40 +0000;
  • 0dde8bd 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 16:50:40 +0000;
  • cb9e231 (origin/RELEASE_3_13, RELEASE_3_13) Update NEWS; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 05:59:30 +0000;
  • 0b97f1b Fix mistake made in 9ac65e4b7500 by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 04:59:43 +0000;
  • 45c2ca1 Update NEWS; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 04:10:32 +0000;
  • b4429b4 Turn off 'build_vignettes' for GHA by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 04:00:37 +0000;
  • 64d1894 'biocthis' version 1.3.8 generated GHA by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 03:51:48 +0000;
  • e72597f Add 'magick' to 'Suggests' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-16 03:38:56 +0000;
  • 5896d97 Fix: R CRAN check only allows 2 cores by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-15 01:14:22 +0000;
  • 5e7c2c7 Fix: '.clusterByFixation' function special case at root by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-14 09:28:30 +0000;
  • 9ac65e4 Fix: error when tree root has more than one lineage path by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-13 01:25:48 +0000;
  • 681a1b3 Fix: R CRAN check only allows 2 cores by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-15 01:14:22 +0000;
  • 61edd79 Fix: '.clusterByFixation' function special case at root by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-14 09:28:30 +0000;
  • 157cfa6 Fix: error when tree root has more than one lineage path by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-09-13 01:25:48 +0000;
  • cdaadee Update NEWS; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-22 08:09:19 +0000;
  • 73d971f Update NEWS; Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-22 08:08:20 +0000;
  • cabf5e1 Update DESCRIPTION, README and vignettes by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-21 09:47:39 +0000;
  • e9dc30a Fix: avoid fake parallel fixation mutation by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-18 11:23:21 +0000;
  • 9d0fdbb Merge pull request <a href="#29">#29</a> from wuaipinglab/bugfix by Chengyang Ji <17981888+Takkoona@users.noreply.github.com> 2021-07-22 11:06:47 +0800;
  • 3394b27 Update DESCRIPTION, README and vignettes by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-21 09:47:39 +0000;
  • 162e133 Fix: avoid fake parallel fixation mutation by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-18 11:23:21 +0000;
  • f0ea081 Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-06 05:17:00 +0000;
  • 12789d4 Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-06 05:13:39 +0000;
  • 420b4a8 Reduced plot legend to account for ggplot2 3.3.4 by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-05 06:42:49 +0000;
  • 309bacd Bug fix: 'allSitesName' returns NULL for 'paraFixSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-05 06:09:20 +0000;
  • aea10a4 Allow partially plot 'lineagePath'; Remove '0' label in 'fixationSites' plot by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-28 01:06:15 +0000;
  • d52716b Improved 'plotMutSites' function for 'lineagePath' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-22 10:30:19 +0000;
  • 153a36c Reduced plot legend to account for ggplot2 3.3.4 by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-05 06:42:49 +0000;
  • a475d0e Bug fix: 'allSitesName' returns NULL for 'paraFixSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-07-05 06:09:20 +0000;
  • 9d9876f Allow partially plot 'lineagePath'; Remove '0' label in 'fixationSites' plot by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-28 01:06:15 +0000;
  • 5ef65b9 Improved 'plotMutSites' function for 'lineagePath' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-22 10:30:19 +0000;
  • 99760ab Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-16 08:06:57 +0000;
  • 55a6311 Bump verion; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-16 07:09:23 +0000;
  • 92d903f 'biocthis' version 1.3.1 generated GHA by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-16 06:08:55 +0000;
  • badb572 Amend 'test-parallelSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-16 05:11:56 +0000;
  • 92f3c6f Add test cases for 'plotMutSites' function; Minor code reformat by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-15 07:03:37 +0000;
  • 8794877 Wrongly skipped sites in 'parallelSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-11 09:31:56 +0000;
  • 25c0022 Enable plot functions for 'parallelSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-10 13:10:35 +0000;
  • a20d369 Not scaling of 'minEffectiveSize' for lineages by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-04 03:08:00 +0000;
  • 25d7aa3 The first 'stable' path as default 'lineagePath' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-05-22 08:48:05 +0000;
  • 2252652 Add 'usedSites' argument to 'setSiteNumbering' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-05-22 06:43:02 +0000;
  • a94346a Amend 'test-parallelSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-16 05:11:56 +0000;
  • 77a3e11 Add test cases for 'plotMutSites' function; Minor code reformat by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-15 07:03:37 +0000;
  • 6b09885 Wrongly skipped sites in 'parallelSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-11 09:31:56 +0000;
  • 3c43e12 Enable plot functions for 'parallelSites' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-10 13:10:35 +0000;
  • f6abe2c Not scaling of 'minEffectiveSize' for lineages by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-06-04 03:08:00 +0000;
  • d758066 The first 'stable' path as default 'lineagePath' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-05-22 08:48:05 +0000;
  • 0491e68 Add 'usedSites' argument to 'setSiteNumbering' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-05-22 06:43:02 +0000;
  • 91ab78c 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 16:42:29 +0000;
  • 295fa75 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 16:42:29 +0000;
  • 192e516 (origin/RELEASE_3_12, RELEASE_3_12) Bump version by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-27 08:06:45 +0000;
  • 8e83f40 Change default 'minSNP' for 'parallelSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-27 07:14:12 +0000;
  • 3cfe0ea Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-27 08:04:37 +0000;
  • 88760d9 Specify R version for GHA (too new by default) by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-27 07:43:25 +0000;
  • e4b9b5b Change default 'minSNP' for 'parallelSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-27 07:14:12 +0000;
  • 982f2ec Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-16 06:37:37 +0000;
  • 3c1cbe5 Add 'rmarkdown' in 'Suggests' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-16 03:26:20 +0000;
  • 8285cd3 Add methods for 'paraFixSites' S3 class by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-06 02:32:37 +0000;
  • 52e5a2b Only plot paths with duplication in number for 'sneakPeek' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-02 07:23:18 +0000;
  • 3ddabb1 Add options for 'plotMutSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-02 07:21:53 +0000;
  • d8dd27e Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-16 03:40:07 +0000;
  • 0d321a0 Add 'rmarkdown' in 'Suggests' by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-16 03:26:20 +0000;
  • 2011657 Add methods for 'paraFixSites' S3 class by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-06 02:32:37 +0000;
  • 469f365 Only plot paths with duplication in number for 'sneakPeek' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-02 07:23:18 +0000;
  • 21960bb Add options for 'plotMutSites' function by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-04-02 07:21:53 +0000;
  • 99bd86c Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-03-29 07:20:12 +0000;
  • b3b9982 Bump version; Update NEWS by Chengyang Ji <chengyang.ji12@alumni.xjtlu.edu.cn> 2021-03-24 07:04:39 +0000;