Commits · b801983fe01c9cbea71add27940555be42749bd5 · Astrocyte / Workflows / BICF / chipseq_analysis

Oct 22, 2017
- update config to not have local step. · b801983f
  Venkat Malladi authored 7 years ago
  
  b801983f
- Fix passing of bedpe reads. · 17fd164c
  Venkat Malladi authored 7 years ago
  
  17fd164c
- update output of convertReads. · 938c75fd
  Venkat Malladi authored 7 years ago
  
  938c75fd
- Convert bam to tagAlign. · 4c00f7ea
  Venkat Malladi authored 7 years ago
  
  4c00f7ea
Oct 20, 2017
- Fix syntax of process name. · bdf276ec
  Venkat Malladi authored 7 years ago
  
  bdf276ec
Oct 18, 2017
- Merge branch '11-remove-fastqc' into 'master' · bc57f830
  Venkat Malladi authored 7 years ago
```
Remove fastqc step.

Closes #11

See merge request !9
```
  bc57f830
- Remove fastqc step. · 7a3a2bb0
  Venkat Malladi authored 7 years ago
  
  7a3a2bb0
- Merge branch '6-deeptools' into 'master' · e914ddd5
  Venkat Malladi authored 7 years ago
```
Resolve "Update deeptools"

Closes #6

See merge request !8
```
  e914ddd5
- Fix path to files. · b8c85d1e
  Venkat Malladi authored 7 years ago
  
  b8c85d1e
- Fix varaible name. · c64e9f39
  Venkat Malladi authored 7 years ago
  
  c64e9f39
- Fix missing variable. · 60ff5559
  Venkat Malladi authored 7 years ago
  
  60ff5559
- Fix output dedupdesign. · 2eddbd49
  Venkat Malladi authored 7 years ago
  
  2eddbd49
- 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