From dbd365efb08f23370063733d2bde080859165709 Mon Sep 17 00:00:00 2001
From: bbimber <bbimber@gmail.com>
Date: Thu, 14 Dec 2023 12:39:02 -0800
Subject: [PATCH] Update logic for VcfToLuceneIndexer and fractionHet to
 include just samples with the allele

---
 .../java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java   | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java b/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java
index 01db6282..4fbd5146 100644
--- a/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java
+++ b/src/main/java/com/github/discvrseq/walkers/VcfToLuceneIndexer.java
@@ -264,7 +264,7 @@ else if (line.getCountType() == VCFHeaderLineCount.INTEGER || line.getCountType(
                     doc.add(new IntPoint("nCalled", (int)nCalled));
                     doc.add(new StoredField("nCalled", (int)nCalled));
 
-                    float fractionHet = (float) nHet / (float) nCalled;
+                    float fractionHet = (float) nHet / (float) (nHet + nHomVar);
                     doc.add(new FloatPoint("fractionHet", fractionHet));
                     doc.add(new StoredField("fractionHet", fractionHet));