Mark DePristo 2e9ecf639e Generalized interface to LazyGenotypesContext ... -- Now you provide a LazyParsing object -- LazyGenotypesContext now knows nothing about the VCF parser itself. The parser holds all of the necessary data to parse the VCF genotypes when necessarily, and the LGC only has a pointer to this object -- Using new interface added LazyGenotypesContext to unit tests with a simple lazy version -- Deleted VCFParser interface, as it was no longer necessary		2011-11-21 09:30:40 -05:00
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R	Compacting pdfs when running under R 2.13+.	2011-10-27 14:51:56 -04:00
c	…
chainFiles	…
doc	…
java	Generalized interface to LazyGenotypesContext	2011-11-21 09:30:40 -05:00
packages	No more hunting down R "resources". As a tradeoff Rscript cannot be specified on the commandline and will be found in the environment path.	2011-10-27 14:17:07 -04:00
perl	Update to the bindings for liftOverVCF.pl (to -V from -B)	2011-09-15 15:33:09 -04:00
scala	During flanking interval creation merging overlapping flanks so that on scatter the list doesn't accidentally genotype the same site twice.	2011-11-17 13:56:42 -05:00
testdata	Testdata for IntervalStratification	2011-11-10 11:08:34 -05:00