renluyao
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quartet-wgs-germline-qc
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quartet-wgs-germline-qc/defaults

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  1. {

  2.   "benchmarking_dir": "oss://pgx-result/renluyao/manuscript/benchmark_calls_v3.0/",

  3.   "SENTIEON_INSTALL_DIR": "/opt/sentieon-genomics",

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

  5.   "BENCHMARKdocker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/rtg-hap:latest",

  6.   "dbsnp_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/",

  7.   "disk_size": "500",

  8.   "FASTQCdocker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqc:v0.11.5",

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

  10.   "screen_ref_dir": "oss://pgx-reference-data/fastq_screen_reference/",

  11.   "dbmills_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/",

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

  13.   "fastq_screen_conf": "oss://pgx-reference-data/fastq_screen_reference/fastq_screen.conf",

  14.   "MULTIQCdocker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/multiqc:v1.8",

  15.   "FASTQSCREENdocker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqscreen:0.12.0",

  16.   "SENTIEONdocker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/sentieon-genomics:v2018.08.01",

  17.   "QUALIMAPdocker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/qualimap:2.0.0",

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

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

  20.   "MENDELIANdocker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/vbt:v1.1",

  21.   "DIYdocker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/high_confidence_call_manuscript:v1.4",

  22.   "ref_dir": "oss://pgx-reference-data/GRCh38.d1.vd1/"

  23. }