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HaplotypeCaller now calls insertion events that aren't fully assembled as symbolic alleles.

This commit is contained in:
Ryan Poplin 2012-07-10 14:22:23 -06:00
parent 75e5a50b8a
commit d70bb59182
1 changed files with 2 additions and 0 deletions
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public/java/src/org/broadinstitute/sting/utils/Haplotype.java
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@ -44,6 +44,8 @@ public class Haplotype {
private boolean isRef = false; private boolean isRef = false;
private Cigar cigar; private Cigar cigar;
private int alignmentStartHapwrtRef; private int alignmentStartHapwrtRef;
public int leftBreakPoint = 0;
public int rightBreakPoint = 0;
/** /**
* Create a simple consensus sequence with provided bases and a uniform quality over all bases of qual * Create a simple consensus sequence with provided bases and a uniform quality over all bases of qual