Ryan Poplin 35e803e110 Merged bug fix from Stable into Unstable		2012-07-26 14:00:04 -04:00
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bqsr	Smoothing in the BQSR bins should be one error observation and one non-error observation.	2012-07-26 13:59:02 -04:00
compression/reducereads	Updating default value for -mindel to the one used by Khalid in the pipeline and me in my tests.	2012-07-10 02:04:26 -04:00
genotyper	Improvements to indel calling in pool caller: a) Compute per-read likelihoods in reference sample to determine wheter a read is informative or not. b) Fixed bugs in unit tests. c) Fixed padding-related bugs when computing matches/mismatches in ErrorModel, d) Added a couple of more integration tests to increase test coverage, including testing odd ploidy	2012-07-26 13:43:00 -04:00
haplotypecaller	Updating HaplotypeCaller docs and expanding integration tests.	2012-07-23 10:05:42 -04:00