Commits · ed054149c9d5e35d62ead0d92b9c6a7e6c1caa6c · NGS CLIA Lab / process_scripts

Jul 09, 2018
- adding union · ed054149
  Brandi Cantarel authored 6 years ago
  
  ed054149
Jul 07, 2018
- update norm/uniform · a65f5d7a
  Brandi Cantarel authored 6 years ago
  
  a65f5d7a
- Merge branch 'phg_workflow_ps' into 'master' · 5556c748
  Brandi Cantarel authored 6 years ago
```
cbioportal

See merge request BICF/Astrocyte/process_scripts!2
```
  5556c748
Jul 06, 2018
- cbioportal · fb5fcff8
  Chelsea Raulerson authored 6 years ago
  
  fb5fcff8
Jun 20, 2018
- adding cnvkit · e4f7025c
  Brandi Cantarel authored 6 years ago
  
  e4f7025c
May 21, 2018
- adding obsolete · 348e8503
  Brandi Cantarel authored 6 years ago
  
  348e8503
- update AF callers · a575d98a
  Brandi Cantarel authored 6 years ago
  
  a575d98a
May 12, 2018
- Merge branch 'phg_workflow_ps' into 'master' · ba1a5c49
  Brandi Cantarel authored 6 years ago
```
fix hisat cmd for read pair options

See merge request !1
```
  ba1a5c49
- fix hisat cmd for read pair options · b682d7f7
  Chelsea Raulerson authored 6 years ago
  
  b682d7f7
May 09, 2018
- Add in setup for python packages. · 0dde7a1a
  Venkat Malladi authored 6 years ago
  
  0dde7a1a
May 08, 2018
- Remove xcor file. · fc025345
  Venkat Malladi authored 6 years ago
  
  fc025345
- Move scripts over for general use. · 963980bc
  Venkat Malladi authored 6 years ago
  
  963980bc
May 02, 2018
- Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts · d8aed0d8
  Brandi Cantarel authored 6 years ago
  
  d8aed0d8
- add repeat type · 16f5c702
  Brandi Cantarel authored 6 years ago
  
  16f5c702
May 01, 2018
- updating hisat-genotype paired vs single end · ad8d9db2
  Brandi Cantarel authored 6 years ago
  
  ad8d9db2
Apr 27, 2018
- gatk format · 5a94d6d7
  Brandi Cantarel authored 6 years ago
  
  5a94d6d7
Apr 17, 2018
- fixed all issues with STAR -- still a crappy aligner nontheless · 0bdf56d5
  Brandi Cantarel authored 7 years ago
  
  0bdf56d5
Apr 16, 2018
- adding module load star · 1edf4c95
  Brandi Cantarel authored 7 years ago
  
  1edf4c95
Apr 10, 2018
- merge changes rnaseqalign · 291e1c35
  Brandi Cantarel authored 7 years ago
  
  291e1c35
- adding updates for rna · d4013ee3
  Brandi Cantarel authored 7 years ago
  
  d4013ee3
Mar 26, 2018
- Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts · 012a37c5
  Brandi Cantarel authored 7 years ago
  
  012a37c5
- update support single-end · b54812cf
  Brandi Cantarel authored 7 years ago
  
  b54812cf
Mar 22, 2018
- update umi support rnaseqalign · ba64b4b1
  Brandi Cantarel authored 7 years ago
  
  ba64b4b1
Mar 16, 2018
- fix typos dnaseqalign cnvkit · 240f711b
  Brandi Cantarel authored 7 years ago
  
  240f711b
Mar 12, 2018
- update db location · b6d2f689
  Brandi Cantarel authored 7 years ago
  
  b6d2f689
- add updates dnaseq · 5a098a61
  Brandi Cantarel authored 7 years ago
  
  5a098a61
Mar 09, 2018
- update annot dbs · ae56c421
  Brandi Cantarel authored 7 years ago
  
  ae56c421
Mar 06, 2018
- location change clinseqfiles · 93333bf7
  Brandi Cantarel authored 7 years ago
  
  93333bf7
Mar 05, 2018
- java compatibility problem (snpEff uses 8) others use 7 · e066daaa
  Brandi Cantarel authored 7 years ago
  
  publish_0.1.1
  
  e066daaa
Mar 02, 2018
- Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts · 47d58a2e
  Brandi Cantarel authored 7 years ago
  
  47d58a2e
- update somaticvc.pl · 2c0d9ac2
  Brandi Cantarel authored 7 years ago
  
  2c0d9ac2
- Merge branch 'master' of git.biohpc.swmed.edu:BICF/Astrocyte/process_scripts · 8b7a9d27
  Brandi Cantarel authored 7 years ago
  
  8b7a9d27
- update somatic_vcf.sh · 5d1e29c6
  Brandi Cantarel authored 7 years ago
  
  5d1e29c6
Feb 28, 2018
- update cnv kit filter · f29af901
  Brandi Cantarel authored 7 years ago
  
  publish_0.1.0
  
  f29af901
Feb 24, 2018
- adding updates formatting · 4fe8bcaf
  Brandi Cantarel authored 7 years ago
  
  4fe8bcaf
Feb 21, 2018
- modify errors in somatic_vc.sh · d8c03da1
  Brandi Cantarel authored 7 years ago
  
  d8c03da1
Feb 18, 2018
- fixing platypus union format · 09e71db1
  Brandi Cantarel authored 7 years ago
  
  09e71db1
Feb 16, 2018
- updating git repo · 41a31528
  Brandi Cantarel authored 7 years ago
  
  41a31528
Feb 14, 2018
- update gatkrunner · 6dd51206
  Brandi Cantarel authored 7 years ago
  
  6dd51206
Feb 13, 2018
- adding rnaseq umi · cd2b26a8
  Brandi Cantarel authored 7 years ago
  
  cd2b26a8