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FS values need to be jittered just like HRun 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5835 348d0f76-0448-11de-a6fe-93d51630548a
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rpoplin 2011-05-22 16:44:12 +00:00
parent 9cc049f80f
commit 4e7ecbdcb2
1 changed files with 1 additions and 1 deletions
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2
java/src/org/broadinstitute/sting/gatk/walkers/variantrecalibration/VariantDataManager.java
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@ -207,7 +207,7 @@ public class VariantDataManager {
private static double decodeAnnotation( final String annotationKey, final VariantContext vc, final boolean jitter ) {
double value;
if( jitter && annotationKey.equalsIgnoreCase("HRUN") ) { // HRun values must be jittered a bit to work in this GMM
if( jitter && ( annotationKey.equalsIgnoreCase("HRUN") || annotationKey.equalsIgnoreCase("FS") ) ) { // Integer valued annotations must be jittered a bit to work in this GMM
value = Double.parseDouble( (String)vc.getAttribute( annotationKey ) );
value += -0.25 + 0.5 * GenomeAnalysisEngine.getRandomGenerator().nextDouble();
} else if( annotationKey.equals("QUAL") ) {