USeq Source Code

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

Commit [r306] Maximize Restore History

A bit of package rearrangements to accomidate the molecular barcode clustering and consensus classes.

Authored by: biotelerock 2015-09-04

Browse code at this revision

Parent: [r305]

Child: [r307]

added	/trunk/Source/edu/utah/seq/barcodes
added	/trunk/Source/edu/utah/seq/barcodes/BarcodeChromMerger.java
added	/trunk/Source/edu/utah/seq/barcodes/BarcodeCluster.java
added	/trunk/Source/edu/utah/seq/barcodes/BarcodeClusterEngine.java
added	/trunk/Source/edu/utah/seq/barcodes/BarcodeStats.java
added	/trunk/Source/edu/utah/seq/barcodes/Consensus.java
added	/trunk/Source/edu/utah/seq/barcodes/ConsensusEngine.java
added	/trunk/Source/edu/utah/seq/barcodes/ConsensusEngineListsForBrendan.java
added	/trunk/Source/edu/utah/seq/barcodes/OldBarcodeChromMerger.java
added	/trunk/Source/edu/utah/seq/barcodes/TestBarcodeClustering.java
renamed	/trunk/Source/edu/utah/seq/parsers/FastqBarcodeTagger.java -> /trunk/Source/edu/utah/seq/barcodes/FastqBarcodeTagger.java
changed	/trunk/Source/edu/utah/seq/parsers/MergePairedAlignments.java
changed	/trunk/Source/edu/utah/seq/parsers/SamAlignmentExtractor.java
changed	/trunk/Source/util/bio/seq/Seq.java

/trunk/Source/edu/utah/seq/barcodes

Directory.

/trunk/Source/edu/utah/seq/barcodes/BarcodeChromMerger.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/BarcodeCluster.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/BarcodeClusterEngine.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/BarcodeStats.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/Consensus.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/ConsensusEngine.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/ConsensusEngineListsForBrendan.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/OldBarcodeChromMerger.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/barcodes/TestBarcodeClustering.java Diff Switch to side-by-side view

/trunk/Source/edu/utah/seq/parsers/FastqBarcodeTagger.java to /trunk/Source/edu/utah/seq/barcodes/FastqBarcodeTagger.java

File was renamed.

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

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

/trunk/Source/util/bio/seq/Seq.java Diff Switch to side-by-side view