USeq Source Code

Brought to you by: biotelerock, bmilash, elainegee, scourdy, tmosbruger

Commit [r275] Maximize Restore History

Added changes and apps to support BamQC for the H1K project.

Authored by: biotelerock 2014-12-11

Browse code at this revision

Parent: [r274]

Child: [r276]

changed	/trunk/Documentation/USeqDocumentation/releaseNotes.txt
changed	/trunk/Source/edu/utah/seq/analysis/DefinedRegionDifferentialSeq.java
added	/trunk/Source/edu/utah/seq/data/ChromData.java
added	/trunk/Source/edu/utah/seq/data/ChromDataSave.java
changed	/trunk/Source/edu/utah/seq/data/Sam2USeq.java
changed	/trunk/Source/edu/utah/seq/parsers/MergePairedAlignments.java
added	/trunk/Source/edu/utah/seq/parsers/PairedAlignmentChrParser.java
renamed	/trunk/Source/edu/utah/seq/parsers/ReadCoverageParser.java -> /trunk/Source/edu/utah/seq/parsers/CollectBamStats.java
changed	/trunk/Source/edu/utah/seq/useq/USeqUtilities.java
changed	/trunk/build.properties

/trunk/Documentation/USeqDocumentation/releaseNotes.txt Diff Switch to side-by-side view

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

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

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

/trunk/Source/edu/utah/seq/data/Sam2USeq.java Diff Switch to side-by-side view

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

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

/trunk/Source/edu/utah/seq/parsers/ReadCoverageParser.java to /trunk/Source/edu/utah/seq/parsers/CollectBamStats.java

File was renamed.

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

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