gatk-3.8/python/1kgScripts/runme_freeze5.1.csh

python ~/dev/GenomeAnalysisTK/trunk/python/MergeBAMBatch.py -d freeze5.1 -q gsa lists/low_coverage_freeze5.list -n lists/naids_and_pop.txt
python ~/dev/GenomeAnalysisTK/trunk/python/MergeBAMBatch.py -d freeze5.1 -q gsa -s lists/trios_freeze5.list