From 3ba2e5667c30190096504ebe6d505c78d9eee3d9 Mon Sep 17 00:00:00 2001 From: Mark DePristo Date: Thu, 8 Mar 2012 09:43:24 -0500 Subject: [PATCH] CalibrateGenotypesLikelihoods include pOfDGivenD now --- .../java/src/org/broadinstitute/sting/utils/QualityUtils.java | 2 ++ 1 file changed, 2 insertions(+) diff --git a/public/java/src/org/broadinstitute/sting/utils/QualityUtils.java b/public/java/src/org/broadinstitute/sting/utils/QualityUtils.java index 9722f901b..7756ac71b 100755 --- a/public/java/src/org/broadinstitute/sting/utils/QualityUtils.java +++ b/public/java/src/org/broadinstitute/sting/utils/QualityUtils.java @@ -10,6 +10,8 @@ import net.sf.samtools.SAMUtils; */ public class QualityUtils { public final static byte MAX_QUAL_SCORE = SAMUtils.MAX_PHRED_SCORE; + public final static double ERROR_RATE_OF_MAX_QUAL_SCORE = qualToErrorProbRaw(MAX_QUAL_SCORE); + public final static double MIN_REASONABLE_ERROR = 0.0001; public final static byte MAX_REASONABLE_Q_SCORE = 40; public final static byte MIN_USABLE_Q_SCORE = 6;