rnaseq-engineering/defaults

{
    "idx": "oss://pgx-reference-data/reference/hisat2/grch38_snp_tran/", 
    "gtf": "oss://pgx-reference-data/reference/annotation/Homo_sapiens.GRCh38.93.gtf",
    "idx_prefix": "genome_snp_tran",
    "screen_ref_dir": "oss://pgx-reference-data/fastq_screen_reference/",
    "fastq_screen_conf": "oss://pgx-reference-data/fastq_screen_reference/fastq_screen.conf",
    "fastqscreen_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqscreen:0.12.0",
    "fastqscreen_cluster": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
    "fastqc_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqc:v0.11.5",
    "fastqc_cluster": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
    "fastp_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastp:0.19.6",
    "fastp_cluster": "OnDemand bcs.a2.xlarge img-ubuntu-vpc",
    "trim_front1": "0",
    "trim_tail1": "0",
    "max_len1": "0",
    "trim_front2": "0",
    "trim_tail2": "0",
    "max_len2": "0",
    "adapter_sequence": "AGATCGGAAGAGCACACGTCTGAACTCCAGTCA",
    "adapter_sequence_r2": "AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT",
    "disable_adapter_trimming": "0",
    "length_required": "50",
    "length_required1": "20",
    "UMI": "0",
    "umi_len": "0",
    "umi_loc": "umi_loc",
    "qualified_quality_phred": "20",
    "disable_quality_filtering": "1",
    "hisat2_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/hisat2:v2.1.0-2",
    "hisat2_cluster": "OnDemand bcs.a2.3xlarge img-ubuntu-vpc",
    "samtools_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/samtools:v1.3.1",
    "samtools_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
    "qualimap_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/qualimap:2.0.0",
    "qualimap_cluster": "OnDemand bcs.a2.3xlarge img-ubuntu-vpc",
    "stringtie_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/stringtie:v1.3.4",
    "stringtie_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
    "ballgown_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/pgx-ballgown:0.0.1",
    "ballgown_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
    "count_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/count:v1.0",
    "count_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
    "insert_size":"8000",
    "count_length": "150"
}