USeq Source Code

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Commit [r74] Maximize Restore History

Added new app for filtering multi sample vcf files. Set sam parser stringency on DRDS to silent. More gzipper options.

Authored by: biotelerock 2013-03-18

Browse code at this revision

Parent: [r73]

Child: [r75]

changed	/trunk/Source/edu/utah/seq/analysis/DefinedRegionDifferentialSeq.java
added	/trunk/Source/edu/utah/seq/base/MultiSampleVCFFilter.java
added	/trunk/Source/edu/utah/seq/parsers/MultiSampleVCFParser.java
added	/trunk/Source/edu/utah/seq/parsers/MultiSampleVCFRecord.java
changed	/trunk/Source/edu/utah/seq/parsers/VCFParser.java
changed	/trunk/Source/edu/utah/seq/parsers/VCFRecord.java
added	/trunk/Source/edu/utah/seq/parsers/VCFSample.java
changed	/trunk/Source/edu/utah/seq/useq/data/RegionScoreText.java
changed	/trunk/Source/util/gen/Gzipper.java
changed	/trunk/build.properties

/trunk/Source/edu/utah/seq/analysis/DefinedRegionDifferentialSeq.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/base/MultiSampleVCFFilter.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/MultiSampleVCFParser.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/MultiSampleVCFRecord.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/VCFParser.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/VCFRecord.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/VCFSample.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/useq/data/RegionScoreText.java Diff Switch to side-by-side view

/trunk/Source/util/gen/Gzipper.java Diff Switch to side-by-side view

/trunk/build.properties Diff Switch to side-by-side view