depristo 9fe71dc452 Fisher exact makes a return. Seems to be working properly. Current tagged as a work in progress. Needs to take the filtered context to be truly correct. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4562 348d0f76-0448-11de-a6fe-93d51630548a		2010-10-22 20:35:53 +00:00
..
annotations	More archiving	2010-07-12 17:04:41 +00:00
concordance	Archiving	2010-07-27 02:47:18 +00:00
graphalign	archiving, removing, or promoting to core from playground	2010-08-27 01:07:42 +00:00
mendelian	archiving, removing, or promoting to core from playground	2010-08-27 01:07:42 +00:00
multisamplecaller	Retiring multi-sample genotyper	2010-05-20 14:11:11 +00:00
oldepthofcoverage	CoverageStatistics has now replaced DepthOfCoverage -- old DoC is in the archive.	2010-04-01 16:27:23 +00:00
oldindels	Removing deprecated version of indel genotyper (putting it in archive in case we need to reproduce original 1KG indel calls for some reason).	2010-01-31 14:05:36 +00:00
oldsecondarybases	Removing deprecated code and walkers for which I had the green light from repository.	2009-12-01 05:58:20 +00:00
poolseq	Cleaning up playground utils and tests	2010-08-27 01:25:47 +00:00
secondaryBases	archiving, removing, or promoting to core from playground	2010-08-27 01:07:42 +00:00
vcftools	1. Refactoring of GenoypeWriters so that parallelization now works again with VCF4.0. We now have just a single reference to the old VCF classes, and that one will be purged soon.	2010-07-20 06:16:45 +00:00
AlleleBalanceInspector.java	more clean-up: moving AlleleBalanceInspector to archive.	2010-04-16 20:53:33 +00:00
ConcordanceTruthTable.java	No longer used	2010-04-16 17:57:39 +00:00
DSBWalker.java	moving older versions of the oneoff project to archive, bye-bye	2010-02-04 19:46:27 +00:00
DSBWalkerV2.java	moving older versions of the oneoff project to archive, bye-bye	2010-02-04 19:46:27 +00:00
DuplicateQualsWalker.java	Home for retired duplicateQuals analysis utility	2010-01-06 15:05:00 +00:00
HapmapPoolAllelicInfoWalker.java	No longer used	2010-04-16 17:57:39 +00:00