chartl 7908237b90 Full calling pipeline now calls indels through the indel genotyper, merges with combine variants, and filters on them. Since new genomic annotator is fast, it is no longer scatter-gathered. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4144 348d0f76-0448-11de-a6fe-93d51630548a		2010-08-27 16:28:24 +00:00
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depristo	1kg script now works	2010-08-10 12:01:18 +00:00
examples	Allowing the Queue to run the GATK via -cp instead of only from -jar.	2010-08-27 16:25:59 +00:00
kshakir	Updated firehose clean bam pipeline to pull firehose info and push back firehose clean bam.	2010-08-23 20:38:42 +00:00
rpoplin	Changed logging level to default at INFO instead of WARN.	2010-08-09 16:42:48 +00:00
fullCallingPipeline.q	Full calling pipeline now calls indels through the indel genotyper, merges with combine variants, and filters on them. Since new genomic annotator is fast, it is no longer scatter-gathered.	2010-08-27 16:28:24 +00:00
recalibrate.scala	More updates to the CleanBamFile pipeline.	2010-08-17 14:59:42 +00:00