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Merge pull request #695 from broadinstitute/pd_genotype_concordance_doc 

Documentation fix (closed HTML tag)
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Eric Banks 2014-08-05 07:15:40 -04:00
parent e69b0d6316 359fe150c9
commit 03e7ee6e9c
1 changed files with 1 additions and 1 deletions
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public/gatk-tools-public/src/main/java/org/broadinstitute/gatk/tools/walkers/variantutils/GenotypeConcordance.java
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@ -106,7 +106,7 @@ import java.util.*;
* <li>UNAVAILABLE: variant is not called in this callset</li>
* <li>MIXED: something like ./1</li>
* </ul>
* <li><i>GenotypeConcordance_Summary<i></li>
* <li><i>GenotypeConcordance_Summary</i></li>
* <ul>
* <li>Non-Reference_Sensitivity (NRS): sensitivity of the EVAL calls to polymorphic calls in the COMP set, calculated by (# true positive)/(# true polymorphic)</li>
* <li>Non-Reference_Discrepancy (NRD): genotype discordance excluding concordant reference sites, calculated by (# discordant sites)/(total excluding # HOM_REF_HOM_REF) = 1.0-(# HOM_VAR_HOM_VAR + # HET_HET)/(total excluding # HOM_REF_HOM_REF)</li>