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rnaseq-engineering
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rnaseq-engineering/defaults

defaults 1.3KB
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first commit
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revised workflow
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add-fastqc-fastqcreen
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revised workflow
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add-fastqc-fastqcreen
il y a 5 ans
first commit
il y a 5 ans
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  1. {

  2.     "idx": "oss://pgx-reference-data/reference/hisat2/grch38_snp_tran/", 

  3.     "gtf": "oss://pgx-reference-data/reference/tophat2/annotation/gencode.v22.annotation.gtf",

  4.     "idx_prefix": "genome_snp_tran",

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

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

  7.     "fastqscreen_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqscreen:0.12.0",

  8.     "fastqscreen_cluster": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",

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

  10.     "fastqc_cluster": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",

  11.     "hisat2_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/hisat2:v2.1.0-2",

  12.     "hisat2_cluster": "OnDemand bcs.a2.3xlarge img-ubuntu-vpc",

  13.     "samtools_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/samtools:v1.3.1",

  14.     "samtools_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",

  15.     "stringtie_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/stringtie:v1.3.4",

  16.     "stringtie_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",

  17.     "ballgown_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/pgx-ballgown:0.0.1",

  18.     "ballgown_cluster": "OnDemand bcs.b2.large img-ubuntu-vpc"

  19. }