Write coverage to VCF

seppinho · Mar 3, 2024 · f2953da · f2953da
1 parent b465d3b
commit f2953da
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/src/main/java/genepi/mut/util/MutationServerReader.java b/src/main/java/genepi/mut/util/MutationServerReader.java
@@ -94,6 +94,7 @@ public HashMap<String, Sample> parse(double requiredHetLevel) {
 			variant.setMajorLevel(majorLevel);
 			variant.setMinorLevel(minorLevel);
 			variant.setMeanBaseQualiy(meanBaseQuality);
+			variant.setCoverage(coverage);
 			variant.setType(type);
 
 			sample.addVariant(variant);