Mauricio Carneiro d3e2352072 Moved processing pipelines to private ... These pipelines were supposed to serve as an example for the community, they were written a long-long-long time ago and are being used today by users as the 'best practice pipeline'. Unless we decide we want to support and maintain an example best-practices pipeline, I'm moving these to private.		2013-01-07 14:49:57 -05:00
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CNV	Fixed fragment handling in DepthOfCoverage	2012-11-21 16:01:10 -05:00
examples	RetryMemoryLimit now works with Scatter/Gather.	2012-10-09 21:51:03 -04:00
lib	Mostly small changes to my own scala scripts: .vcf.gz compatibility for output files, smarter beagle generation, simple script to scatter-gather combine variants. Whole genome indel calling now uses the gold standard indel set.	2012-02-22 17:20:04 -05:00
GATKResourcesBundle.scala	Updates to the bundle script:	2012-12-18 11:16:42 -05:00