diff options
| -rw-r--r-- | tools/gridss.nix | 3 |
1 files changed, 1 insertions, 2 deletions
diff --git a/tools/gridss.nix b/tools/gridss.nix index 0e32366..6bfd495 100644 --- a/tools/gridss.nix +++ b/tools/gridss.nix @@ -60,7 +60,7 @@ rec { /* As annotateVariants except include assembly in output */ annotateAndAssemble = exec (attrs: input: ((callBionix ./gridss-variants.nix attrs) input).annotateAndAssemble); - /* Preprocess BAM files to extract SV reads and convert soft clips to split reads + /* Preprocess BAM files to extract SV reads and compute required stats Type: preprocessBam :: bam -> bam */ preprocessBam = with samtools; @@ -68,7 +68,6 @@ rec { (gridss.extractSVReads {}) (sort {nameSort = true;}) (gridss.computeSamTags {}) - (gridss.softClipsToSplitReads {}) (sort {}) ]; |