kiran 5f67914b08 Added loads of documentation. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@777 348d0f76-0448-11de-a6fe-93d51630548a		2009-05-21 19:40:47 +00:00
..
gatk	QualityUtils: added reverse function to reverse an array of bytes (and not complement it), BaseUtils: split qualToProb into itself and qualToErrProb, CovariateCounterWalker and LogisticRecalibrationWalker: several changes including a properly acocunting (only partly complete) for reversing AND complementing bases that are negative strand, PrintReadsWalker: created option to output reads to a BAM file rather than just to the sceern (useful for creating a downsampled BAM file)	2009-05-21 18:30:45 +00:00
playground	don't ignore reads when maxReadLength isn't set	2009-05-21 19:24:10 +00:00
secondarybase	Added loads of documentation.	2009-05-21 19:40:47 +00:00
utils	Added a method to reverse-complement a String object, preserving 'N' and '.' bases.	2009-05-21 19:39:39 +00:00