Eric Banks 5bf9dd2def A framework to get annotations working in the HaplotypeCaller (and ART walkers in general). ... Adding support for active-region-based annotation for most standard annotations. I need to discuss with Ryan what to do about tests that require offsets into the reads (since I don't have access to the offsets) like e.g. the ReadPosRankSumTest. IMPORTANT NOTE: this is still very much a dev effort and can only be accessed through private walkers (i.e. the HaplotypeCaller). The interface is in flux and so we are making no attempt at all to make it clean or to merge this with the Locus-Traversal-based annotation system. When we are satisfied that it's working properly and have settled on the proper interface, we will clean it up then.		2012-04-11 16:22:12 -04:00
..
config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	A framework to get annotations working in the HaplotypeCaller (and ART walkers in general).	2012-04-11 16:22:12 -04:00
test	Not sure why this didn't make it into the last push, but here's a working MD5 for the NDA annotation in UG	2012-04-11 13:49:50 -04:00