rpoplin f587ff46af Tile is now a standard covariate. By default the TileCovariate returns -1 if tile can't be derived from the read's name. Added a new command line option -throwTileException which will force TileCovariate to throw an exception if tile can't be derived for a read. Singleton covariates, such as any read group without tile info, must be skipped over in TableRecalibration so that the sequential formulation doesn't apply the same correction more than once. TileCovariate class has been added to the Early Access package. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2544 348d0f76-0448-11de-a6fe-93d51630548a		2010-01-07 22:51:41 +00:00
..
Aligner.xml	Update packaging system to produce multiple jars if asked nicely.	2009-12-03 17:11:12 +00:00
CreatePackager.xsl	Update packaging system to produce multiple jars if asked nicely.	2009-12-03 17:11:12 +00:00
FixBAMSortOrder.xml	Adding a package description for making a version of the GATK that only includes the FixBAMSortOrderTag walker.	2009-12-22 00:35:24 +00:00
GATK-Picard.xml	Create package that contains just what Picard needs.	2009-12-21 18:48:27 +00:00
GATKResources.xml	Version 0.2.1 (released) of the TableRecalibrator	2009-06-25 22:50:55 +00:00
GenomeAnalysisTK.xml	Tile is now a standard covariate. By default the TileCovariate returns -1 if tile can't be derived from the read's name. Added a new command line option -throwTileException which will force TileCovariate to throw an exception if tile can't be derived for a read. Singleton covariates, such as any read group without tile info, must be skipped over in TableRecalibration so that the sequential formulation doesn't apply the same correction more than once. TileCovariate class has been added to the Early Access package.	2010-01-07 22:51:41 +00:00
PicardPrivate.xml	Update packaging system to produce multiple jars if asked nicely.	2009-12-03 17:11:12 +00:00
VCFValidator.xml	Update packaging system to produce multiple jars if asked nicely.	2009-12-03 17:11:12 +00:00