From 2df12472c2f198d251700f3b5eecebd61f89660d Mon Sep 17 00:00:00 2001
From: delangel <delangel@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 3 Jun 2011 16:08:29 +0000
Subject: [PATCH] One more step in commit to support multi-allelic indel
 genotyping and processing: utility class that supports multi-allelic genotype
 likelihoods

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5935 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../MultiallelicGenotypeLikelihoods.java      | 45 +++++++++++++++++++
 1 file changed, 45 insertions(+)
 create mode 100755 java/src/org/broadinstitute/sting/gatk/walkers/genotyper/MultiallelicGenotypeLikelihoods.java

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/MultiallelicGenotypeLikelihoods.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/MultiallelicGenotypeLikelihoods.java
new file mode 100755
index 000000000..00ef179cd
--- /dev/null
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/MultiallelicGenotypeLikelihoods.java
@@ -0,0 +1,45 @@
+package org.broadinstitute.sting.gatk.walkers.genotyper;
+
+import org.broad.tribble.util.variantcontext.Allele;
+
+import java.util.ArrayList;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: delangel
+ * Date: 6/1/11
+ * Time: 10:38 AM
+ * To change this template use File | Settings | File Templates.
+ */
+public class MultiallelicGenotypeLikelihoods {
+    private String sample;
+    private double[] GLs;
+    private ArrayList<Allele> alleleList;
+    private int depth;
+
+    public MultiallelicGenotypeLikelihoods(String sample,
+                                         ArrayList<Allele> A,
+                                         double[] log10AALikelihoods, int depth) {
+         this.sample = sample;
+         this.alleleList = A;
+         this.GLs = log10AALikelihoods;
+         this.depth = depth;
+     }
+
+     public String getSample() {
+         return sample;
+     }
+
+      public double[] getLikelihoods() {
+         return GLs;
+     }
+
+     public ArrayList<Allele> getAlleles() {
+         return alleleList;
+     }
+
+     public int getDepth() {
+         return depth;
+     }
+
+}