ebanks 4c02607297 genotyper also needs to have 454 reads filtered out ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1221 348d0f76-0448-11de-a6fe-93d51630548a		2009-07-10 23:19:28 +00:00
..
examples	Update naming for consistency.	2009-06-30 22:03:21 +00:00
gatk	genotyper also needs to have 454 reads filtered out	2009-07-10 23:19:28 +00:00
indels	count X/N/etc. as mismatches for the NM attribute in the BAMs	2009-06-30 16:08:55 +00:00
piecemealannotator	Cleanup...deprecate FastaSequenceFile2 in favor of IndexedFastaSequenceFile or ReferenceSequenceFile from Picard, depending on the application.	2009-07-08 18:49:08 +00:00
somaticcoverage	Convert the somatic coverage tool to output from the packaging tool rather than from the dist target.	2009-06-18 21:29:30 +00:00
utils	move warning about strictly adjacent intervals in a contig from 'remap' to 'read', so it is issued only once	2009-07-10 17:58:11 +00:00
ValidateSAM.java	Update to latest version of picard. Change imports in all classes dependent on picard public from import edu.mit.broad.picard... to import net.sf.picard...	2009-05-28 20:13:01 +00:00