Mark DePristo 4095a9ef32 Bugfixes for AssessNA12878 ... -- Refactor initialization routine into BadSitesWriter. This now adds the GQ and DP genotype header lines which are necessarily if the input VCF doesn't have proper headers -- GATKVariantContextUtils subset to biallelics now tolerates samples with bad GL values for multi-allelics, where it just removes the PLs and issues a warning.		2013-02-28 10:35:06 -05:00
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GATKVCFUtils.java	Replace org.broadinstitute.variant with jar built from the Picard repo	2013-02-05 17:24:25 -05:00
GATKVariantContextUtils.java	Bugfixes for AssessNA12878	2013-02-28 10:35:06 -05:00