RealignerTargetCreator
gatk
r1Fastq
BwaSampe
r1Sai
BwaSampe
r2Fastq
BwaSampe
r2Sai
BwaSampe
ref
BwaAln
BwaBacktrack
BwaSampe
GatkTask
FilterFreeBayesCalls
FreeBayes
Strelka
regionSize
FreeBayes
rnaMode
HaplotypeCaller
run
CalculateDownsamplingProportion
DeleteFiles
DeleteVcfs
GetNumPfReads
GetSampleNamesFromVcf
DeleteBam