depristo 2f1e249aed A proper validation report, calculating TP, FP, FN, sensitivity, FDR, PPV. Treats comp as a set of sites that have been either filtered (failed in assay), validated (polymorphic among samples), or invalidated (AC=0 or all genotypes = hom-ref). Very useful. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5384 348d0f76-0448-11de-a6fe-93d51630548a		2011-03-06 19:27:40 +00:00
..
config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	A proper validation report, calculating TP, FP, FN, sensitivity, FDR, PPV. Treats comp as a set of sites that have been either filtered (failed in assay), validated (polymorphic among samples), or invalidated (AC=0 or all genotypes = hom-ref). Very useful.	2011-03-06 19:27:40 +00:00
test	CalculateChromosomeCounts() now only calculates AC, AF, and AN when there are genotypes. Can now combine variants with headers that differ in only whether a field is a integer or a float. Updated CombineVariants integrationtest, as incorrect AC values where being calculated in the previous GS outputs.	2011-03-06 19:25:52 +00:00