1. ribosomeProfilingQC
  2. Graph
Graph of ribosomeProfilingQC
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  • 90176f9 (HEAD -> devel, origin/master, origin/devel, origin/HEAD) fix a typo. by JIANHONG OU <jianhong@users.noreply.github.com> 2023-06-06 09:07:53 -0400;
  • 66bf2b1 add ignore.seqlevelStyle parameter to provide the flexibility of seqlevels. by JIANHONG OU <jianhong@users.noreply.github.com> 2023-06-06 09:05:07 -0400;
  • bba85a7 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 11:15:39 -0400;
  • 98f155b (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 11:15:39 -0400;
  • 04d805b add precedence parameter to readsDistribution by JIANHONG OU <jianhong@users.noreply.github.com> 2023-03-16 13:52:00 -0400;
  • 7a127d6 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 11:21:25 -0400;
  • 1fb3d93 (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 11:21:25 -0400;
  • b99da30 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 16:02:49 +0000;
  • 887822a (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 16:02:49 +0000;
  • a97d282 Pass serialized S4 instances thru updateObject() by Hervé Pagès <hpages.on.github@gmail.com> 2021-11-21 00:49:04 -0500;
  • 7ab254d (origin/RELEASE_3_14, RELEASE_3_14) replace stop by message for different seqlevelsStyles. by JIANHONG OU <jianhong@users.noreply.github.com> 2021-11-10 16:48:59 -0500;
  • bd37a81 export `readLen` for `estimatePsite` by JIANHONG OU <jianhong@users.noreply.github.com> 2021-11-10 16:08:47 -0500;
  • bf2b9c7 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 16:57:33 +0000;
  • ed77ac4 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 16:57:33 +0000;
  • 7503f41 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 16:49:46 +0000;
  • 482e0e7 (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 16:49:46 +0000;
  • 372fa95 add rmarkdown as suggest package. by jianhong <jianhong.ou@gmail.com> 2021-04-16 11:28:55 -0400;
  • e966f06 remove github action from master branch. by jianhong <jianhong.ou@gmail.com> 2021-04-06 13:07:48 -0400;
  • 154bb26 add github action. by jianhong <jianhong.ou@gmail.com> 2021-04-02 10:56:33 -0400;
  • 5c7f59f (origin/RELEASE_3_12, RELEASE_3_12) fix the issue in shiftReads for reads width is smaller than shift range. by jianhong <jianhong.ou@gmail.com> 2021-03-10 18:24:26 -0500;
  • 33f17be fix the issue if there is softclip in the mapping reads and the reads length is smaller than shfit range. by jianhong <jianhong.ou@gmail.com> 2021-03-10 17:30:26 -0500;
  • ec66e7b keep the raw counts for countReads by jianhong <jianhong.ou@gmail.com> 2021-03-07 09:00:44 -0500;
  • 0f38355 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 11:53:47 -0400;
  • a6e0ac2 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 11:53:47 -0400;
  • f41e15b fix the issue in shiftReads and readsEndPlot. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-08-06 07:38:42 -0400;
  • a6e6817 (origin/RELEASE_3_11, RELEASE_3_11) update RoxygenNot version. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-08-05 15:41:53 -0400;
  • 48f5abe fix the bug of seqlevels issue in readsEndPlot and reads length issue in getPsiteCoordinates by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-08-05 15:11:11 -0400;
  • 2a71b22 update vignette for the R version requirement by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-19 13:59:08 -0400;
  • 5758951 update documentation about the R version requirement. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-19 10:53:06 -0400;
  • a8b19ce update authorship by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-09 10:54:03 -0400;
  • 17d9f2a update authorship by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-09 10:52:02 -0400;
  • eca4371 Fix the error "CIGAR is empty after qnarrowing". by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-01 08:31:23 -0400;
  • 82c6c2b Fix the error "CIGAR is empty after qnarrowing". by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-06-01 08:21:17 -0400;
  • 011da8b update vignette to fix the typos. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-05-25 23:13:28 -0400;
  • ab5474c update vignette to fix the typos. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-05-25 14:19:52 -0400;
  • 6667477 update vignette by adding background colors for better understanding the pipeline. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-05-08 13:01:11 -0400;
  • 86fd0d5 update vignette by adding background colors for better understanding the pipeline. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-05-08 12:29:49 -0400;
  • 63d6d8c 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 19:34:12 +0000;
  • 018f43b 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 19:34:12 +0000;
  • ff28aa3 change Y-axis lable from Frequence to Frequency for plot Distance2Codon. update vignette. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-04-18 16:35:06 -0400;
  • e5e80d8 change it back. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-04-13 15:18:53 -0400;
  • 953bd25 roll back to 3.6 by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-04-13 15:15:27 -0400;
  • 4d15cc8 reset the test_estimatePsite. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-13 23:49:12 -0400;
  • a193220 try to decrease the check time by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-13 23:03:40 -0400;
  • 0815968 try to decrease the testing time. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-13 21:45:33 -0400;
  • 4cd4a49 fix the missing link of plot in plotTE.rd by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-13 20:46:05 -0400;
  • f22482b add codonUsage function. update functions ggBar, readsEndPlot, and plotDistance2Codon. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-13 14:55:10 -0400;
  • 790c126 update the description in DESCRIPTION. update help files. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-12 10:10:48 -0400;
  • 761cff4 change the link from AtomicList to AtomicList-class and RUVs-methods to RUVs. shorter lines < 80 characters. spead up coverageDepth by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-04 10:52:48 -0500;
  • cb6d924 Update NEWS.md by JIANHONG OU <jianhong@users.noreply.github.com> 2020-03-03 22:13:16 -0500;
  • 0eb3fbc Update DESCRIPTION by JIANHONG OU <jianhong@users.noreply.github.com> 2020-03-03 22:11:40 -0500;
  • ffed0d8 Delete .DS_Store by JIANHONG OU <jianhong@users.noreply.github.com> 2020-03-03 22:11:00 -0500;
  • 4f37fa3 downsize the package. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-03-03 21:11:50 -0500;
  • 9c99ef1 update the version number to 0.99.0 by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-28 15:26:32 -0500;
  • 417b84e remove sapply. add more examples. split the vignette into two files. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-28 15:21:38 -0500;
  • 50f2812 update documentation and simulateRPF by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-28 12:14:04 -0500;
  • 0a82815 add import reverseComplement. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-27 17:34:25 -0500;
  • 0b63d96 update simulateRPF for differential expressed exons. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-27 17:08:57 -0500;
  • 4a88bc3 add test module by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-02-13 15:03:45 -0500;
  • 4b73c4d add function spliceEvent by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2020-01-28 17:55:32 -0500;
  • d5932ff move to ggplot2 for barplot. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2019-11-04 15:32:45 -0500;
  • 7589962 fix the bug of different in seqlevelsStyle by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2019-10-29 12:28:04 -0400;
  • 2257813 update readme by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2019-10-29 09:38:05 -0400;
  • a033ecf Initial. by Jianhong Ou <jianhongou@Jianhongs-MacBook-Pro.local> 2019-10-29 09:33:37 -0400;
  • 4b97e1b Initial commit by JIANHONG OU <jianhong@users.noreply.github.com> 2019-10-29 09:18:29 -0400;