hanna 862b8a6787 intervals_file + genome_loc => intervals. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@659 348d0f76-0448-11de-a6fe-93d51630548a		2009-05-12 01:04:18 +00:00
..
CountLociWalker.java	N-way parallelism. Works for small test cases. Untested for large test cases.	2009-05-01 19:34:09 +00:00
CountReadsWalker.java	Changed reads traversals from providing a LocusContext from which the reference sequence	2009-05-11 22:45:11 +00:00
DepthOfCoverageWalker.java	Switch to better mechanism for supplying a default.	2009-05-07 01:22:01 +00:00
DuplicateWalker.java	System for traversing duplicate reads, along with a walker to compute quality scores among duplicates and a smarter method to combine quality scores across duplicates -- v1	2009-05-07 18:06:02 +00:00
LocusWalker.java	Push reduceInit down a level so that the walker can call into it without weird casts.	2009-05-08 13:46:28 +00:00
LocusWindowWalker.java	Added functionality to allow for a contract between LocusWindowTraversalEngine and LocusWindowWalker which allows the Walker to act upon reads outside of the provided intervals.	2009-05-08 17:28:16 +00:00
NullWalker.java	Added RefMetaDataTracker system as a replacement for the List<RefenenceOrderedData> going into walkers. This system allows you to more easily get a tracker for processing using the lookup(name, default) system. See Pileup for an example.	2009-04-03 19:54:54 +00:00
PileupWalker.java	Switch to better mechanism for supplying a default.	2009-05-07 01:22:01 +00:00
PrintLocusContextWalker.java	N-way parallelism. Works for small test cases. Untested for large test cases.	2009-05-01 19:34:09 +00:00
PrintReadsWalker.java	Changed reads traversals from providing a LocusContext from which the reference sequence	2009-05-11 22:45:11 +00:00
ReadWalker.java	Changed reads traversals from providing a LocusContext from which the reference sequence	2009-05-11 22:45:11 +00:00
RefWalker.java	ByReference traversals!	2009-04-03 13:23:18 +00:00
TreeReducible.java	N-way parallelism. Works for small test cases. Untested for large test cases.	2009-05-01 19:34:09 +00:00
ValidatingPileupWalker.java	Switch to better mechanism for supplying a default.	2009-05-07 01:22:01 +00:00
Walker.java	intervals_file + genome_loc => intervals.	2009-05-12 01:04:18 +00:00
WalkerName.java	Make command-line arguments available in walker constructor, provide back door from	2009-03-26 20:45:27 +00:00