YaqingLiu
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quartet_wes_vcf
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quartet_wes_vcf/defaults

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  1. {

  2.   "benchmarking_dir": "oss://pgx-result/renluyao/manuscript_v3.0/reference_datasets_v202103/",

  3.   "fasta": "GRCh38.d1.vd1.fa",

  4.   "BENCHMARKdocker": "registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/rtg-hap:latest",

  5.   "dbsnp_dir": "oss://hcc1395/reference_genome/GRCh38.d1.vd1/",

  6.   "BEDTOOLSdocker": "registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/bedtools:v2.27.1",

  7.   "disk_size": "500",

  8.   "reference_bed_dict": "oss://hcc1395/reference_genome/GRCh38.d1.vd1/GRCh38.d1.vd1.dict",

  9.   "MULTIQCdocker": "registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/multiqc:v1.8",

  10.   "SMALLcluster_config": "OnDemand bcs.ps.g.xlarge img-ubuntu-vpc",

  11.   "screen_ref_dir": "oss://hcc1395/reference_genome/fastq_screen_reference/",

  12.   "dbmills_dir": "oss://hcc1395/reference_genome/GRCh38.d1.vd1/",

  13.   "BIGcluster_config": "OnDemand bcs.a2.7xlarge img-ubuntu-vpc",

  14.   "fastq_screen_conf": "oss://hcc1395/reference_genome/fastq_screen_reference/fastq_screen.conf",

  15.   "vcf_D5": "",

  16.   "benchmark_region": "oss://pgx-result/renluyao/manuscript_v3.0/reference_datasets_v202103/Quartet.high.confidence.region.v202103.bed",

  17.   "db_mills": "Mills_and_1000G_gold_standard.indels.hg38.vcf",

  18.   "dbsnp": "dbsnp_146.hg38.vcf",

  19.   "MENDELIANdocker": "registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/vbt:v1.1",

  20.   "DIYdocker": "registry.cn-shanghai.aliyuncs.com/hcc1395_aliyun/high_confidence_call_manuscript:1.5",

  21.   "ref_dir": "oss://hcc1395/reference_genome/GRCh38.d1.vd1/"

  22. }