Commits · 4a069abfc3d97f1fd282cd610107af9ee6972f25 · Astrocyte / Workflows / BICF / chipseq_analysis

Jan 22, 2019
- change png to pdf · 4a069abf
  Holly Ruess authored 6 years ago
  
  4a069abf
Jan 18, 2019
- add Pearson Correlation, make plots pdf · e78c5af1
  Holly Ruess authored 6 years ago
  
  e78c5af1
Jan 11, 2019

Merge branch '15_Annotation_diff_bind' into 'master' · 21f00e65

Venkat Malladi authored 6 years ago

Resolve "Add in current chip-analysis functionality."

Closes #15

See merge request BICF/Astrocyte/chipseq_analysis!18

21f00e65

Jan 10, 2019
- Make csv to tsv. · ad8a4c25
  Venkat Malladi authored 6 years ago
  
  ad8a4c25
- reduce to one page. · 29ea563e
  Venkat Malladi authored 6 years ago
  
  29ea563e
- Fix test peaks. · 1ca8372e
  Venkat Malladi authored 6 years ago
  
  1ca8372e
Jan 09, 2019
- Update configuration. · 96069f62
  Venkat Malladi authored 6 years ago
  
  96069f62
- Fix annotate length. · b1dbf288
  Venkat Malladi authored 6 years ago
  
  b1dbf288
- Fix number of peaks. · 785478ce
  Venkat Malladi authored 6 years ago
  
  785478ce
Jan 08, 2019
- Fixed test data and test output. · 200ded13
  Venkat Malladi authored 6 years ago
  
  200ded13
- Update number of peaks. · 7f082ef8
  Venkat Malladi authored 6 years ago
  
  7f082ef8
Jan 07, 2019
- Fix yaml error. · 12a58779
  Venkat Malladi authored 6 years ago
  
  12a58779
- Update staging to be unit, single and multiple. · 9b00fd0b
  Venkat Malladi authored 6 years ago
  
  9b00fd0b
- Fix paired-end tests. · 3631108c
  Venkat Malladi authored 6 years ago
  
  3631108c
- Fix what tests are run and the testing output. · 6fddf146
  Venkat Malladi authored 6 years ago
  
  6fddf146
Jan 06, 2019
- verify that output directory doesn't exist. · d6dd0596
  Venkat Malladi authored 6 years ago
  
  d6dd0596
- Fix test options and files that should be moved over. · 3a0ac094
  Venkat Malladi authored 6 years ago
  
  3a0ac094
- fix missing genome params and annotate peaks syntax. · cde5c10a
  Venkat Malladi authored 6 years ago
  
  cde5c10a
- Reslove merge conflicts. · 78b410c7
  Venkat Malladi authored 6 years ago
  
  78b410c7
- Merge branch '22_output_dir' into 'master' · cbc05001
  Venkat Malladi authored 6 years ago
```
Add option for outdir.

See merge request BICF/Astrocyte/chipseq_analysis!16
```
  cbc05001
- Update outdir default. · 22db60b0
  Venkat Malladi authored 6 years ago
  
  22db60b0
- Merge branch 'master' into '22_output_dir' · b20526ff
  Venkat Malladi authored 6 years ago
```
# Conflicts:
#   workflow/main.nf
```
  b20526ff
- Merge branch '25_pairedend_QC' into 'master' · b242be87
  Venkat Malladi authored 6 years ago
```
25 pairedend qc

See merge request BICF/Astrocyte/chipseq_analysis!15
```
  b242be87
- Remove test code. · ac16a48e
  Venkat Malladi authored 6 years ago
  
  ac16a48e
- Change output of diffPeaks design file. · 83e1537d
  Venkat Malladi authored 6 years ago
  
  83e1537d
Jan 05, 2019
- Add option for outdir. · 6cbc074d
  Venkat Malladi authored 6 years ago
  
  6cbc074d
- Test for new unique experiment determination. · 4a27bcf5
  Venkat Malladi authored 6 years ago
  
  4a27bcf5
- Add in test to see if output exists. · fb1633a3
  Venkat Malladi authored 6 years ago
  
  fb1633a3
- Change to int for fragment length. · 06b65b68
  Venkat Malladi authored 6 years ago
  
  06b65b68
- Change order of process. Made diffPeaks a when opperative. · 92096435
  Venkat Malladi authored 6 years ago
  
  92096435
- Change test lenght of output. · 6b3c190b
  Venkat Malladi authored 6 years ago
  
  6b3c190b
- Add in extension to other functions. · 9d874ea1
  Venkat Malladi authored 6 years ago
  
  9d874ea1
Jan 04, 2019
- Defaulted to zcat instead of unzip file. · de67f536
  Venkat Malladi authored 6 years ago
```
(cherry picked from commit ec737360)
```
  de67f536
- Fix paried-end quality output options. · 74e367c1
  Venkat Malladi authored 6 years ago
  
  74e367c1
- Fix paried-end quality output. · aa505047
  Venkat Malladi authored 6 years ago
  
  aa505047
- remove annotate peak vennpie and update test. · afa3bbee
  Venkat Malladi authored 6 years ago
  
  afa3bbee
- Fix memechip output directoires. · 673c0718
  Venkat Malladi authored 6 years ago
  
  673c0718
Dec 27, 2018
- Fix merge conflicts. · 6ed06727
  Venkat Malladi authored 6 years ago
  
  6ed06727
- Add test for motif search output. · 1a61363d
  Venkat Malladi authored 6 years ago
  
  1a61363d
- Check differential peaks. · d84a3b62
  Venkat Malladi authored 6 years ago
  
  d84a3b62