USeq Source Code

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

Commit [r125] Maximize Restore History

Lots of mods related to adding edgeR functionality into Defined Region Diff Seq

Authored by: biotelerock 2013-06-20

Browse code at this revision

Parent: [r124]

Child: [r126]

changed	/trunk/Documentation/USeqDocumentation/releaseNotes.txt
changed	/trunk/Source/edu/utah/seq/analysis/DefinedRegionDifferentialSeq.java
changed	/trunk/Source/edu/utah/seq/analysis/MultipleReplicaScanSeqs.java
changed	/trunk/Source/edu/utah/seq/analysis/OverdispersedRegionScanSeqs.java
changed	/trunk/Source/edu/utah/seq/analysis/RNAEditingScanSeqs.java
changed	/trunk/Source/edu/utah/seq/analysis/RNASeq.java
removed	/trunk/Source/edu/utah/seq/analysis/multi/MappedGene.java
removed	/trunk/Source/edu/utah/seq/analysis/multi/MultipleConditionRNASeq.java
changed	/trunk/Source/util/bio/parsers/FetchGenomicSequences.java
changed	/trunk/Source/util/bio/parsers/UCSCGeneLine.java
changed	/trunk/Source/util/gen/IO.java

/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/analysis/MultipleReplicaScanSeqs.java Diff Switch to side-by-side view

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

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

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

/trunk/Source/edu/utah/seq/analysis/multi/MappedGene.java

File was removed.

/trunk/Source/edu/utah/seq/analysis/multi/MultipleConditionRNASeq.java

File was removed.

/trunk/Source/util/bio/parsers/FetchGenomicSequences.java Diff Switch to side-by-side view

/trunk/Source/util/bio/parsers/UCSCGeneLine.java Diff Switch to side-by-side view

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