ebanks 831ad0cd1a Quit immediately with an error message if any of the individual steps fails. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5677 348d0f76-0448-11de-a6fe-93d51630548a		2011-04-22 13:23:33 +00:00
..
maf_annotation	Updated for CentOS changes.	2010-07-08 14:36:24 +00:00
sync1000Genomes	2 more scripts I found helpful in syncing (and cleaning up) the 1000G mirror	2011-02-22 04:17:36 +00:00
AnnotateVCFwithMAF.pl	One more fix: exclude input VCF file's directory name from the output file.	2010-09-08 03:09:08 +00:00
DataTable.pm	…
DistributedMake.pm	Had these changes regarding memory cutoffs for a while. Committing them so I can be running a clean codebase, but people shouldn't use this. Queue is way better.	2010-11-27 23:31:31 +00:00
MergeAndEvaluateVCFs.pl	A helper script to merge two VCFs, run VariantEval, and the VariantReport.R script.	2010-11-28 00:45:21 +00:00
StingArgs.pm	…
batchGATKjobsWithRegExp.pl	…
createTranscriptToGenomicInfoTables.pl	Patch for James	2010-10-20 02:39:16 +00:00
enqueueGATKcallerJobs.pl	…
filterSingleSampleCalls.pl	regexp fixed, now can find OBS_COUNTS followed by both [C/A/R] (obsolete) and [C/A/T] (current)	2010-11-15 15:28:38 +00:00
liftOverVCF.pl	Quit immediately with an error message if any of the individual steps fails.	2011-04-22 13:23:33 +00:00
randomSampleFromStream.pl	…
runPipelineSanityCheck.pl	Also removed contig intervals from the pipeline sanity check perl scsript.	2010-10-21 11:23:34 +00:00
runReleaseSanityCheck.pl	Package all walkers in org/broadinstitute/sting/gatk/walkers directory in release.	2010-11-18 02:33:45 +00:00
sortByRef.pl	bug fix: now contigs not present in the sequence dictionary are registered properly and do not cause the script to break	2010-06-23 20:59:38 +00:00
splitAndEnqueueGATKjobs.pl	…
tablesorter.pl	Script based on the second part of Eric's createTranscriptToGenomicInfoTables.pl script which sorts flat files by reference order	2010-11-15 19:44:32 +00:00