VarScan_workflow.json

{
   "mpileup_varscan.ref_amb": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.amb",
   "mpileup_varscan.ref_fasta": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta",
   "mpileup_varscan.PICARD": "/work-z/user/guoh/soft/picard/build/libs/picard.jar",
   "mpileup_varscan.ref_sa": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.sa",
   "mpileup_varscan.GATK36": "/work-z/user/guoh/soft/GenomeAnalysisTK.jar",
   "mpileup_varscan.ref_dict": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.dict",
   "mpileup_varscan.ref_index": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.fai",
   "mpileup_varscan.sampleMetainfo": "/work-z/user/guoh/research/2016-10-12-Shanghai9thHospital-Tongue_cancer/data/sample.metainfo.tsv",
   "mpileup_varscan.BWA0712": "/work-z/user/guoh/soft/bwa-0.7.12/bwa",
   "mpileup_varscan.SAMTOOLS131": "/work-z/user/guoh/soft/samtools-1.3.1/samtools",
   "mpileup_varscan.THREAD_NUM": "18",
   "mpileup_varscan.ref_pac": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.pac",
   "mpileup_varscan.ref_bwt": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.bwt",
   "mpileup_varscan.ref_ann": "/work-a/public/gatk_bundle/2.8/hg19/ucsc.hg19.fasta.ann",
   "mpileup_varscan.VarScan": "/work-a/app/varscan-2.4.2/VarScan.v2.4.2.jar",
   "mpileup_varscan.panel_bed": "medexome"
}