diff --git a/java/src/org/broadinstitute/sting/playground/utils/GenotypeLikelihoods.java b/java/src/org/broadinstitute/sting/playground/utils/GenotypeLikelihoods.java index 2053e31e8..e55f4396e 100644 --- a/java/src/org/broadinstitute/sting/playground/utils/GenotypeLikelihoods.java +++ b/java/src/org/broadinstitute/sting/playground/utils/GenotypeLikelihoods.java @@ -98,6 +98,15 @@ public class GenotypeLikelihoods { offNextBestBasePriors.put("TT", 0.505); } + public double getHomRefPrior() { return priorHomRef; } + public void setHomRefPrior(double priorHomRef) { this.priorHomRef = priorHomRef; } + + public double getHetPrior() { return priorHet; } + public void setHetPrior(double priorHet) { this.priorHet = priorHet; } + + public double getHomVarPrior() { return priorHomVar; } + public void setHomVarPrior(double priorHomVar) { this.priorHomVar = priorHomVar; } + public void add(char ref, char read, byte qual) { for (int i = 0; i < genotypes.length; i++)