Contamination Threshold 100x Fix (#1074)

matren395 · web-flow · commit 579db2bf4635 · 2025-04-16T10:59:59.000-04:00
Missed this on contamination upper filter - TDR metrics are for out of 1.00 , not 100. Nothing affected in the most recent WGS callset , from the looks of things
diff --git a/v03_pipeline/lib/methods/sample_qc.py b/v03_pipeline/lib/methods/sample_qc.py
@@ -17,7 +17,7 @@
 GNOMAD_FILTER_MIN_CALLRATE = 0.99
 
 CALLRATE_LOW_THRESHOLD = 0.85
-CONTAMINATION_UPPER_THRESHOLD = 5
+CONTAMINATION_UPPER_THRESHOLD = 0.05
 WES_COVERAGE_LOW_THRESHOLD = 85
 WGS_CALLRATE_LOW_THRESHOLD = 30
 
