Commits · 5b792c557dd55412dc63139c8daaa7c78c639150 · Astrocyte / Workflows / BICF / chipseq_analysis

Oct 18, 2017
- Fix params. · 5b792c55
  Venkat Malladi authored 7 years ago
  
  5b792c55
Oct 17, 2017
- Fix outdir syntax. · 88f2aae1
  Venkat Malladi authored 7 years ago
  
  88f2aae1
- Fix seed. · 254336c3
  Venkat Malladi authored 7 years ago
  
  254336c3
- Add in deeptools code to generate QC from deeptools. · 4e68354e
  Venkat Malladi authored 7 years ago
  
  4e68354e
- Update name of params. · 471773a6
  Venkat Malladi authored 7 years ago
  
  471773a6
- Update tests to reflect change in design file. · a1fdbeab
  Venkat Malladi authored 7 years ago
  
  a1fdbeab
- Updated tab spacing. · 7dc8c6b5
  Venkat Malladi authored 7 years ago
  
  7dc8c6b5
Oct 11, 2017
- Merge branch '10-grouping' into 'master' · 6931f8c7
  Venkat Malladi authored 7 years ago
```
Add in experiment_id and check to see if unique replicate ids are given.

Closes #10

See merge request !7
```
  6931f8c7
- Add in experiment_id and check to see if unique replicate ids are given. · 2bb7f6ed
  Venkat Malladi authored 7 years ago
  
  2bb7f6ed
- Merge branch '4-stat-filter' into 'master' · 674ba19c
  Venkat Malladi authored 7 years ago
```
Resolve "Bam Stats and Filter"

Closes #4

See merge request !6
```
  674ba19c
- Fix test. · f4b48e0b
  Venkat Malladi authored 7 years ago
  
  f4b48e0b
Oct 10, 2017
- Add in tests for single end sequencing. · eeb76613
  Venkat Malladi authored 7 years ago
  
  eeb76613
- Update files used. · b8588c1a
  Venkat Malladi authored 7 years ago
  
  b8588c1a
- Fix outputs. · c41e1217
  Venkat Malladi authored 7 years ago
  
  c41e1217
- Update paths and add in testing if file exists. · d7b9a6ba
  Venkat Malladi authored 7 years ago
  
  d7b9a6ba
- Fix spacing. · cb8162c6
  Venkat Malladi authored 7 years ago
  
  cb8162c6
- Update triming to have generalized paths. · d6a5bea0
  Venkat Malladi authored 7 years ago
  
  d6a5bea0
- Add header to pbc file. · 9b65c0bd
  Venkat Malladi authored 7 years ago
  
  9b65c0bd
- Update samtools version and synxtax to fix bugs in last push. · 2948ddca
  Venkat Malladi authored 7 years ago
  
  2948ddca
Oct 09, 2017
- Fix syntax to be tsv format. · ea8a20e5
  Venkat Malladi authored 7 years ago
  
  ea8a20e5
- Remove resume as it is ignored. · de6185ea
  Venkat Malladi authored 7 years ago
  
  de6185ea
- Add in option for resume. · 5ac11bb7
  Venkat Malladi authored 7 years ago
  
  5ac11bb7
- Fix option. · 2c4516e9
  Venkat Malladi authored 7 years ago
  
  2c4516e9
- Update incorrect line break. · adf18e06
  Venkat Malladi authored 7 years ago
  
  adf18e06
- update output. · 7d54e3fe
  Venkat Malladi authored 7 years ago
  
  7d54e3fe
- Add in steps to remove dups and filter reads. · 3a9a868b
  Venkat Malladi authored 7 years ago
  
  3a9a868b
- Merge branch '3-mapping-trimming' into 'master' · 4357eb15
  Venkat Malladi authored 7 years ago
```
Resolve "Add mapping and trimming"

Closes #3

See merge request !5
```
  4357eb15
- Update testing params. · 034d2f58
  Venkat Malladi authored 7 years ago
  
  034d2f58
- update path to trim file. · 99436c11
  Venkat Malladi authored 7 years ago
  
  99436c11
- Update file collection. · 9acca710
  Venkat Malladi authored 7 years ago
  
  9acca710
- Update path to files to pass tests. · a39198b6
  Venkat Malladi authored 7 years ago
  
  a39198b6
Oct 08, 2017
- Add in test for testing map reads singleend. · d8c9c53b
  Venkat Malladi authored 7 years ago
  
  d8c9c53b
- Fix syntax. · de0f2837
  Venkat Malladi authored 7 years ago
  
  de0f2837
- Add in test for verifying single end trim reads. · f0fbf42b
  Venkat Malladi authored 7 years ago
  
  f0fbf42b
- Change genome to GRCm38 to reflect data. · b59f7e0c
  Venkat Malladi authored 7 years ago
  
  b59f7e0c
- Cleanup code after flake8. · daaf631d
  Venkat Malladi authored 7 years ago
  
  daaf631d
- collect the qc metrics. · a33eb4d4
  Venkat Malladi authored 7 years ago
  
  a33eb4d4
- Add in place holders for testing trim reads. · fe645c1a
  Venkat Malladi authored 7 years ago
  
  fe645c1a
- generatlized strip_extension and added tests. · cc0b8e05
  Venkat Malladi authored 7 years ago
  
  cc0b8e05
- Add in test for utils. · 6b2c56dc
  Venkat Malladi authored 7 years ago
  
  6b2c56dc