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Move and rename a hybrid-selection-specific coverage calculation to hybridselection/ 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2225 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
ebanks 2009-12-02 20:11:22 +00:00
parent 2c83f2f2bc
commit a3343c75db
1 changed files with 2 additions and 2 deletions
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4
java/src/org/broadinstitute/sting/playground/gatk/walkers/CoverageAcrossIntervalsWalker.java → java/src/org/broadinstitute/sting/playground/gatk/walkers/hybridselection/CoverageAcrossBaitsWalker.java
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@ -1,4 +1,4 @@
package org.broadinstitute.sting.playground.gatk.walkers; package org.broadinstitute.sting.playground.gatk.walkers.hybridselection;
import org.broadinstitute.sting.gatk.walkers.*; import org.broadinstitute.sting.gatk.walkers.*;
import org.broadinstitute.sting.gatk.refdata.RefMetaDataTracker; import org.broadinstitute.sting.gatk.refdata.RefMetaDataTracker;
@ -24,7 +24,7 @@ import java.util.Arrays;
*/ */
@By(DataSource.REFERENCE) @By(DataSource.REFERENCE)
public class CoverageAcrossIntervalsWalker extends LocusWalker<Pair<Integer, Integer>, CoverageAcrossIntervalsWalker.Coverage> { public class CoverageAcrossBaitsWalker extends LocusWalker<Pair<Integer, Integer>, CoverageAcrossBaitsWalker.Coverage> {
/* Accumulates coverage across hybrid selection bait intervals to assess effect of bait adjacency. /* Accumulates coverage across hybrid selection bait intervals to assess effect of bait adjacency.
Requires input bait intervals that have an overhang beyond the actual bait interval to capture coverage data at these points. Requires input bait intervals that have an overhang beyond the actual bait interval to capture coverage data at these points.
Outputs R parseable file that has all data in lists and then does some basic plotting. Outputs R parseable file that has all data in lists and then does some basic plotting.