David Roazen 1213b2f8c6 SnpEff 2.0.2 support ... -Rewrote SnpEff support in VariantAnnotator to support the latest SnpEff release (version 2.0.2) -Removed support for SnpEff 1.9.6 (and associated tribble codec) -Will refuse to parse SnpEff output files produced by unsupported versions (or without a version tag) -Correctly matches ref/alt alleles before annotating a record, unlike the previous version -Correctly handles indels (again, unlike the previous version		2011-09-14 07:09:47 -04:00
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hapmap	Renaming the HapMap codec and feature to RawHapMap so that we don't get esoteric errors when trying to bind a rod with the name 'hapmap' (since it was also a feature).	2011-08-12 11:11:56 -04:00
vcf	Thanks to Mark for agreeing to transition from 'variants' back to 'variant'. I think I got them all but I've been jumping all around the code, so there might be a straggler or two.	2011-08-09 12:04:55 -04:00