Resolve "Use SampleIds/ Experiment Id as file names throughtout pipeline" (!20) · Merge requests · BICF / Astrocyte / chipseq_analysis

Merged Resolve "Use SampleIds/ Experiment Id as file names throughtout pipeline"

23-rename_output into master

Merged Venkat Malladi requested to merge 23-rename_output into master 6 years ago

Mar 09, 2019
- Only run certain tests on branches vs master. · d9919554
  Venkat Malladi authored 6 years ago
  
  d9919554
- Fix diff peaks output for single end. · 5f6dd111
  Venkat Malladi authored 6 years ago
  
  5f6dd111
Mar 08, 2019
- Fix test output. · 6f79eba4
  Venkat Malladi authored 6 years ago
  
  6f79eba4
Mar 07, 2019
- Remove extra bwa command. · b095c05f
  Venkat Malladi authored 6 years ago
  
  b095c05f
- Fix rename. · 276dac3b
  Venkat Malladi authored 6 years ago
  
  276dac3b
Feb 05, 2019
- Pin versions with corrected syntax. · 55a605d1
  Venkat Malladi authored 6 years ago
  
  55a605d1
- Pin versions.; · e193b1a1
  Venkat Malladi authored 6 years ago
  
  e193b1a1
- Update items to install. · f3cfaa92
  Venkat Malladi authored 6 years ago
  
  f3cfaa92
- Add in correct shuffle step. · 29868d56
  Venkat Malladi authored 6 years ago
  
  29868d56
- Fix output directory. #28 . · 81054b5c
  Venkat Malladi authored 6 years ago
  
  81054b5c
- Update where test files are coming from. · 4bf3f4ac
  Venkat Malladi authored 6 years ago
  
  4bf3f4ac
- Update git ignore. · 280550d3
  Venkat Malladi authored 6 years ago
  
  280550d3
- Update tests and merge. · 8991d010
  Venkat Malladi authored 6 years ago
  
  8991d010
Jan 19, 2019
- Fix the missing parathesis. · e6955b5c
  Venkat Malladi authored 6 years ago
  
  e6955b5c
- Fix test output. · 511f55b0
  Venkat Malladi authored 6 years ago
  
  511f55b0
Jan 15, 2019
- Split tests to make more readable. · 0bd2c988
  Venkat Malladi authored 6 years ago
  
  0bd2c988
- Modify tests. · 89340f9c
  Venkat Malladi authored 6 years ago
  
  89340f9c
Jan 14, 2019
- Fix output directories and file names. · 21aac926
  Venkat Malladi authored 6 years ago
  
  21aac926
- Fix Trim reads output to match. · 483dd61f
  Venkat Malladi authored 6 years ago
  
  483dd61f
- Update tests and output file names. · 2b651306
  Venkat Malladi authored 6 years ago
  
  2b651306
Jan 13, 2019
- Update file name output. · 4aa91a5c
  Venkat Malladi authored 6 years ago
  
  4aa91a5c
- Add return back to xcor. · ba769bcc
  Venkat Malladi authored 6 years ago
  
  ba769bcc
- Make file names consistent. · f6de14de
  Venkat Malladi authored 6 years ago
  
  f6de14de
- Fix narrowpeak file name. · 21dcae96
  Venkat Malladi authored 6 years ago
  
  21dcae96
Jan 12, 2019
- Add back index. · 32642c70
  Venkat Malladi authored 6 years ago
  
  32642c70
- Fix filter reads output. · 1c1e036e
  Venkat Malladi authored 6 years ago
  
  1c1e036e
Jan 11, 2019
- Fix cod syntax. · b47a158e
  Venkat Malladi authored 6 years ago
  
  b47a158e
- Fix variable name. · bb9b42c8
  Venkat Malladi authored 6 years ago
  
  bb9b42c8
- Fix array rename. · d3003427
  Venkat Malladi authored 6 years ago
  
  d3003427
- Fix trim reads input. · fac677c3
  Venkat Malladi authored 6 years ago
  
  fac677c3
- Change to ifelse. · bf2be6c1
  Venkat Malladi authored 6 years ago
  
  bf2be6c1
- Change diffbind peaks. · d68be9e2
  Venkat Malladi authored 6 years ago
  
  d68be9e2
- Merge branch 'master' into 23-rename_output · a8753bd3
  Venkat Malladi authored 6 years ago
  
  a8753bd3
Jan 09, 2019
- Merge branch '15_Annotation_diff_bind' into 23-rename_output · 023a7f7b
  Venkat Malladi authored 6 years ago
  
  023a7f7b
- merge 15. · db853de3
  Venkat Malladi authored 6 years ago
  
  db853de3
Jan 08, 2019
- Remove head. · b4a65689
  Venkat Malladi authored 6 years ago
  
  b4a65689
Jan 07, 2019
- Merge branch '15_Annotation_diff_bind' into 23-rename_output · 5c56b1e2
  Venkat Malladi authored 6 years ago
  
  5c56b1e2
- fix merge. · 52e27a31
  Venkat Malladi authored 6 years ago
  
  52e27a31
- Merge in changes. · 726b0d01
  Venkat Malladi authored 6 years ago
  
  726b0d01
- Remove space. · 123c177c
  Venkat Malladi authored 6 years ago
  
  123c177c
Jan 06, 2019
- Update R script output. · 1f604a6a
  Venkat Malladi authored 6 years ago
  
  1f604a6a
- Fix names in motif search and adding summits files. · db7110cb
  Venkat Malladi authored 6 years ago
  
  db7110cb
- Add summits and remove extra names in files. · e1f7f61b
  Venkat Malladi authored 6 years ago
  
  e1f7f61b
- Shorten and update file names. · fbec8738
  Venkat Malladi authored 6 years ago
  
  fbec8738
- Shorten and update file names. · 7db1f905
  Venkat Malladi authored 6 years ago
  
  7db1f905
- Update cross correlation filenames to be shorter. · 487b307d
  Venkat Malladi authored 6 years ago
  
  487b307d
- Change sample names for convert reads. · f760c6df
  Venkat Malladi authored 6 years ago
  
  f760c6df
- Update file names and output for filter reads. · cf00e0e5
  Venkat Malladi authored 6 years ago
  
  cf00e0e5
- Fix merge of tests. · e57b3605
  Venkat Malladi authored 6 years ago
  
  e57b3605
- Update mapped reads with sample id. · 4c3add75
  Venkat Malladi authored 6 years ago
  
  4c3add75
- Add test for sample and experiment id conformance. · b1c3fb87
  Venkat Malladi authored 6 years ago
  
  b1c3fb87
- Change fastq's to be new sample names as defined by the sample_id. · cec86acd
  Venkat Malladi authored 6 years ago
  
  cec86acd

Resolve "Use SampleIds/ Experiment Id as file names throughtout pipeline"

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