Eric Banks 8bbef79fc2 Create clipped alleles during allele parsing instead of creating a full VC, clipping alleles, and regenerating the VC from scratch.		2011-08-25 15:37:26 -04:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	Create clipped alleles during allele parsing instead of creating a full VC, clipping alleles, and regenerating the VC from scratch.	2011-08-25 15:37:26 -04:00
test	a) Renamed/expanded SelectVariants arguments that choose particular kinds of variants and particular allelic types, now instead of -Indels or -SNPs we can specify for example -selectType [MIXED|INDEL|SNP|MNP|SYMBOLIC]. To select biallelic, multiallelic variants, use -restrictAllelesTo [BIALLELIC|MULTIALLELIC]. Corresponding gatkdocs changes.	2011-08-24 12:25:50 -04:00