3 Commits (5dca1e4d2e44d734b95a89e46cb9e416dfd4bae0)

Author	SHA1	Message	Date
depristo	d77f4ebe31	CalibrateGenotypeLikelihoods now emits a molten data set with REF and ALT alleles, so that GL calibration can be evaluated as a function of the REF/ALT bases. DigestTable is a stand-alone Rscript that digests the multi-GB molten data table into a tiny table that shows reported vs. empirical GLs, as a function of a variety of features of the data, like REF/ALT, comp GT, eval GT, and GL itself. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5833 348d0f76-0448-11de-a6fe-93d51630548a	2011-05-21 14:02:30 +00:00
depristo	75db4705ab	Added splitContextByReadGroup() and fixed bug in getPileupForReadGroup() that resulted in a NPE when no reads where present for a read group. ... Added doc string for getNBoundRodTracks() Intermediate commit for CalibrateGenotypeLikelihoods and GenotypeConcordanceTable, so I have a record of my work. Not ready for public consumption. Really looking forward to making local commits so I can track my progress without needing to push incomplete functionality up to the server. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5807 348d0f76-0448-11de-a6fe-93d51630548a	2011-05-15 17:36:07 +00:00
depristo	5e9c0d00c6	Simple R script to visualize geontype likelihood accuracy ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5805 348d0f76-0448-11de-a6fe-93d51630548a	2011-05-14 15:05:55 +00:00