Ryan Poplin 63213e8eb5 Expanding the HaplotypeCaller integration tests to cover a wider range of data		2012-08-22 14:18:44 -04:00
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bqsr	Re-enabling parallelism in the BaseRecalibrator now that the release is out.	2012-08-20 21:25:14 -04:00
compression/reducereads	Fixed divide by zero bug when downsampler goes over regions where reads are all filtered out. Added Guillermo's bug report as an integration test	2012-08-09 13:02:11 -04:00
genotyper	Final step (for now) in VA refactoring: update MD5's because, a) since it's not guaranteed that we'll iterate through reads/pileups in the same order, the rank sum dithering will change annotations, b) FS uses new generic threshold to distinguish uninformative reads (it used to use ad-hoc thresholds), c) AD definition changed and throws away uninformative reads, d) shortened general ploidy integration tests for quicker debugging. May have missed some MD5's in the update so there may be lingering test failures still	2012-08-22 11:38:51 -04:00
haplotypecaller	Expanding the HaplotypeCaller integration tests to cover a wider range of data	2012-08-22 14:18:44 -04:00