adding parameters for samtools depth

nf-core · Jan 26, 2024 · b805c83 · b805c83
1 parent 1c2cb37
commit b805c83
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -890,6 +890,7 @@ process {
     withName: SAMTOOLS_DEPTH {
         tag = { "${meta1.reference}|${meta1.sample_id}_${meta1.library_id}" }
         ext.prefix = { "${meta1.sample_id}_${meta1.library_id}_samtoolsdepth" }
+        ext.args = '-aa -q30 -Q30'
         publishDir = [
             enabled: false
         ]