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Updated documentation 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2370 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
sjia 2009-12-15 21:31:47 +00:00
parent 555976d575
commit 2deae95df9
2 changed files with 2 additions and 13 deletions
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9
java/src/org/broadinstitute/sting/playground/gatk/walkers/HLAcaller/CallHLAWalker.java
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@ -1,12 +1,5 @@
/*
* To change this template, choose Tools | Templates
* and open the template in the editor.
*/
package org.broadinstitute.sting.playground.gatk.walkers.HLAcaller; package org.broadinstitute.sting.playground.gatk.walkers.HLAcaller;
import net.sf.samtools.SAMRecord; import net.sf.samtools.SAMRecord;
import org.broadinstitute.sting.gatk.contexts.AlignmentContext; import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
import org.broadinstitute.sting.gatk.contexts.ReferenceContext; import org.broadinstitute.sting.gatk.contexts.ReferenceContext;
@ -29,7 +22,7 @@ import java.util.Hashtable;
import java.util.List; import java.util.List;
/** /**
* * Original Call HLA walker (older). Look here for inspiration, but not for the most recent tools
* @author shermanjia * @author shermanjia
*/ */
public class CallHLAWalker extends LocusWalker<Integer, Pair<Long, Long>>{ public class CallHLAWalker extends LocusWalker<Integer, Pair<Long, Long>>{

6
java/src/org/broadinstitute/sting/playground/gatk/walkers/HLAcaller/ImputeAllelesWalker.java
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@ -1,7 +1,3 @@
/*
* FindClosestAlleleWalker finds the most similar HLA allele per read
*/
package org.broadinstitute.sting.playground.gatk.walkers.HLAcaller; package org.broadinstitute.sting.playground.gatk.walkers.HLAcaller;
import net.sf.samtools.SAMRecord; import net.sf.samtools.SAMRecord;
@ -14,7 +10,7 @@ import java.io.InputStreamReader;
import java.util.ArrayList; import java.util.ArrayList;
import java.util.Hashtable; import java.util.Hashtable;
/** /**
* * ImputeAllelesWalker fills in missing intronic info for HLA alleles based on the the most similar HLA allele per read
* @author shermanjia * @author shermanjia
*/ */
@Requires({DataSource.READS, DataSource.REFERENCE}) @Requires({DataSource.READS, DataSource.REFERENCE})