ebanks 0c76a70313 Renamed traversal by "interval" to "locusWindow" ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@537 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-26 02:26:08 +00:00
..
CountLociWalker.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
CountReadsWalker.java	Fixing problems with SAMQueryIterator and reads	2009-04-02 18:04:28 +00:00
DepthOfCoverageWalker.java	consistency with java naming conventions	2009-04-24 21:44:48 +00:00
LocusWalker.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
LocusWindowWalker.java	Renamed traversal by "interval" to "locusWindow"	2009-04-26 02:26:08 +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	Added an argument ('extended' or 'ext') that outputs the four-base probs in a long format.	2009-04-21 22:27:26 +00:00
PrintLocusContextWalker.java	Make PrintLocusContextWalker less verbose.	2009-04-22 18:28:02 +00:00
PrintReadsWalker.java	Provide out and err PrintStreams to the walkers.	2009-03-27 15:03:32 +00:00
ReadWalker.java	doc added	2009-04-17 16:43:25 +00:00
RefWalker.java	ByReference traversals!	2009-04-03 13:23:18 +00:00
ValidatingPileupWalker.java	Support for -continue_after_errors flag in the validating pileup walker in case you want to see errors as they arise, rather than aborting greedily	2009-04-17 03:13:11 +00:00
Walker.java	consistency with java naming conventions	2009-04-24 21:44:48 +00:00
WalkerName.java	Make command-line arguments available in walker constructor, provide back door from	2009-03-26 20:45:27 +00:00