Commits · 913a420cd25cb61fc53575a52e6bfc0a6edf34f2 · Xavier Grand / ChIPster

Mar 10, 2021
- gatk4: change recalibrate_snp to pair recall_table with BAM · 913a420c
  Laurent Modolo authored 4 years ago
  
  913a420c
- gatk4: switch PrintRead to ApplyBQSR · f4e08eb8
  Laurent Modolo authored 4 years ago
  
  f4e08eb8
- gatk4: add vcf indexing for BaseRecalibartor · 2820a500
  Laurent Modolo authored 4 years ago
  
  2820a500
- gatk4: fix BaseRecalibrator params · 1edca65d
  Laurent Modolo authored 4 years ago
  
  1edca65d
- gatk4: fix VariantFiltration params · 6d69470a
  Laurent Modolo authored 4 years ago
  
  6d69470a
- gatk4: update SelectVariants options · b5fa57a6
  Laurent Modolo authored 4 years ago
  
  b5fa57a6
- gatk4: fix SelectVariants cmd (remove -T) · 93c9b2e9
  Laurent Modolo authored 4 years ago
  
  93c9b2e9
Mar 09, 2021
- gatk4: remove spark... · b18b1efe
  Laurent Modolo authored 4 years ago
  
  b18b1efe
- gatk4: fix java-options · 8e3c7bf4
  Laurent Modolo authored 4 years ago
  
  8e3c7bf4
- gatk4: change -o to -O · 342d3265
  Laurent Modolo authored 4 years ago
  
  342d3265
- gatk4: fix spark config · b2d82f21
  Laurent Modolo authored 4 years ago
  
  b2d82f21
- gatk4: change -nct to --spark-master option · c0aef2ef
  Laurent Modolo authored 4 years ago
  
  c0aef2ef
Mar 08, 2021
- gatk4: remove unnecessary -T option · 021ace34
  Laurent Modolo authored 4 years ago
  
  021ace34
- gatk4: try to fix task memory parsing · 2d1951f6
  Laurent Modolo authored 4 years ago
  
  2d1951f6
- gatk4: add G unit to xmx params · 986ed55b
  Laurent Modolo authored 4 years ago
  
  986ed55b
- gatk4: add xmx_memory parsing for every process · ca0ecd54
  Laurent Modolo authored 4 years ago
  
  ca0ecd54
- gatk4: fix typo :264 · 61d6bb79
  Laurent Modolo authored 4 years ago
  
  61d6bb79
- gatk4: change Xmx option parsing · 8818f78d
  Laurent Modolo authored 4 years ago
  
  8818f78d
Mar 05, 2021
- nf_modules: add gatk4 · bea9b094
  Laurent Modolo authored 4 years ago
  
  bea9b094
Feb 17, 2021
- gatk3: add new processes · 1207cdab
  Laurent Modolo authored 4 years ago
  
  1207cdab
- gatk3: fix variant calling · eddc374c
  Laurent Modolo authored 4 years ago
  
  eddc374c
Feb 15, 2021
- typo in gatk3 to DSL2 · 23755281
  Laurent Modolo authored 4 years ago
  
  23755281
- add gatk3 to DSL2 · 4a115a8a
  Laurent Modolo authored 4 years ago
  
  4a115a8a