Commits · daaf631daaa68de88c94a37a4da527a280f4371b · Astrocyte / Workflows / BICF / chipseq_analysis

Oct 08, 2017
- Cleanup code after flake8. · daaf631d
  Venkat Malladi authored 7 years ago
  
  daaf631d
- generatlized strip_extension and added tests. · cc0b8e05
  Venkat Malladi authored 7 years ago
  
  cc0b8e05
- Fix bwa aln variables. · 34f899e0
  Venkat Malladi authored 7 years ago
  
  34f899e0
- Fix bam syntax and file name. · c7af593e
  Venkat Malladi authored 7 years ago
  
  c7af593e
Oct 07, 2017
- Fix order of sai and fastq arguments. · 1b918e88
  Venkat Malladi authored 7 years ago
  
  1b918e88
- update the naming of the reads. · 3d77cb5b
  Venkat Malladi authored 7 years ago
  
  3d77cb5b
- update samtools flagstat and name of outfile · 2e634083
  Venkat Malladi authored 7 years ago
  
  2e634083
Oct 06, 2017
- Fix missing variable and naming conventions. · 6a389e7f
  Venkat Malladi authored 7 years ago
  
  6a389e7f
- Add in trace config and fix varaible of map_reads. · 0205044c
  Venkat Malladi authored 7 years ago
  
  0205044c
- Fix file used in first step. · 08898dde
  Venkat Malladi authored 7 years ago
  
  08898dde
- Fix missing libraries and use of python3. · 861b7993
  Venkat Malladi authored 7 years ago
  
  861b7993
Oct 05, 2017
- Add in maping step with apporpriate configurations. · 14299993
  Venkat Malladi authored 7 years ago
  
  14299993
Oct 03, 2017
- Consistency in documentation. · 932baa0d
  Venkat Malladi authored 7 years ago
  
  932baa0d
- Update trim_reads to extrapolate the params. · 13fe4335
  Venkat Malladi authored 7 years ago
  
  13fe4335
- Update trim command name. · fd33ecb7
  Venkat Malladi authored 7 years ago
  
  fd33ecb7
- Add in argument for trim_parameters. · 5532fa6d
  Venkat Malladi authored 7 years ago
  
  5532fa6d
- update path variables in logger output · b583f9b0
  Venkat Malladi authored 7 years ago
  
  b583f9b0
- update path variables · 31ffef27
  Venkat Malladi authored 7 years ago
  
  31ffef27
- Fix logger syntax. · 4b135733
  Venkat Malladi authored 7 years ago
  
  4b135733
Oct 01, 2017
- Add triming of reads, remove fastqc step. · 84872f97
  Venkat Malladi authored 7 years ago
  
  84872f97
Sep 30, 2017
- Add in fastqc step. · 3d73714a
  Venkat Malladi authored 7 years ago
  
  3d73714a
Sep 28, 2017
- Pass nextflow test for design file. · 8ef6e674
  Venkat Malladi authored 7 years ago
  
  8ef6e674
Sep 26, 2017
- Add in test for design files. · 02bef1b4
  Venkat Malladi authored 7 years ago
  
  02bef1b4
Sep 20, 2017
- update syntax and order of qc_fastq.py · dfed27c2
  Venkat Malladi authored 7 years ago
  
  dfed27c2
Sep 13, 2017
- Add in test data and updated scripts. · db1c9133
  Venkat Malladi authored 7 years ago
  
  db1c9133
Sep 12, 2017
- Update name of task and permission. · 73082a3c
  Venkat Malladi authored 7 years ago
  
  73082a3c
- First test at using fastqc. · ad1a4aa5
  Venkat Malladi authored 7 years ago
  
  ad1a4aa5
Sep 08, 2017
- Add in gitignore and remove pyc files · 458ac1f7
  Venkat Malladi authored 7 years ago
  
  458ac1f7
May 09, 2017
- fix chipseeker mm10 · e93f03f2
  Beibei Chen authored 7 years ago
  
  e93f03f2
Apr 26, 2017
- update yaml · 480f260b
  Beibei Chen authored 7 years ago
  
  480f260b
- remove unessessory files · 3cc1bd73
  Beibei Chen authored 7 years ago
  
  3cc1bd73
- modify runMEME and set default for toppeak · 144bd3f4
  Beibei Chen authored 7 years ago
  
  publish_0.0.11
  
  144bd3f4
- Still need pybedtools · b585c2ff
  Beibei Chen authored 7 years ago
  
  b585c2ff
Apr 25, 2017
- remove pybedtools module · 1c18232a
  Beibei Chen authored 7 years ago
  
  publish_0.0.9
  
  1c18232a
Apr 21, 2017
- fix path and bam indexing · d100d917
  Beibei Chen authored 7 years ago
  
  d100d917
- update path · 16c0daa7
  Beibei Chen authored 7 years ago
  
  16c0daa7
Feb 08, 2017
- Got rid of abs path · 014508e5
  Beibei Chen authored 8 years ago
  
  014508e5
Feb 03, 2017
- main works · 6e0bfcf3
  Beibei Chen authored 8 years ago
  
  6e0bfcf3
- meme original works · eff4984e
  Beibei Chen authored 8 years ago
  
  eff4984e
- diffbind works · f378ae81
  Beibei Chen authored 8 years ago
  
  f378ae81