chartl 93cedf4285 --------------- ... | Added items | --------------- @/varianteval/PoolAnalysis Interface to identify variant analyses that are pool-specific. @/varianteval/BasicPoolVariantAnalysis Nearly the same as BasicVariantAnalysis with the addition of a protected integer (numIndividualsInPool) which holds the pool size. One soulcrushing change is that "protected String filename" needed to become "protected String[] filename" since now multiple truth files may be looked at. It was tempting to make the change in BasicVariantAnalysis with some default methods that would maintain usability of the remainder of the VariantAnalysis objects, but I decided to hold off. We can always merge these together later. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1526 348d0f76-0448-11de-a6fe-93d51630548a		2009-09-03 21:26:04 +00:00
..
config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src/org/broadinstitute/sting	---------------	2009-09-03 21:26:04 +00:00
test/org/broadinstitute/sting	Better organization of Genotype likelihood calculations. NewHotness is now just GenotypeLikelihoods. There are 1, 3, and empirical base error models available as subclasses, along with a simple way to make this (see the factory).	2009-08-30 19:16:30 +00:00