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- {
- "fastp_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastp:0.19.6",
- "fastp_cluster": "OnDemand bcs.b2.3xlarge 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",
- "idx_prefix": "genome_snp_tran",
- "idx": "oss://pgx-reference-data/reference/hisat2/grch38_snp_tran/",
- "pen_cansplice":"0",
- "pen_noncansplice":"12",
- "pen_intronlen":"G,-8,1",
- "min_intronlen":"20",
- "max_intronlen":"500000",
- "maxins":"500",
- "minins":"0",
- "samtools_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/samtools:v1.3.1",
- "samtools_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
- "insert_size":"8000",
- "gtf": "oss://pgx-reference-data/reference/annotation/Homo_sapiens.GRCh38.93.gtf",
- "stringtie_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/stringtie:v1.3.4",
- "stringtie_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc",
- "minimum_length_allowed_for_the_predicted_transcripts":"200",
- "minimum_isoform_abundance":"0.01",
- "Junctions_no_spliced_reads":"10",
- "maximum_fraction_of_muliplelocationmapped_reads":"0.95",
- "fastqc_cluster_config": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
- "fastqc_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqc:v0.11.5",
- "fastqc_disk_size": "150",
- "qualimapBAMqc_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/qualimap:2.0.0",
- "qualimapBAMqc_cluster_config": "OnDemand bcs.a2.7xlarge img-ubuntu-vpc",
- "qualimapBAMqc_disk_size": "500",
- "qualimapRNAseq_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/qualimap:2.0.0",
- "qualimapRNAseq_cluster_config": "OnDemand bcs.a2.7xlarge img-ubuntu-vpc",
- "qualimapRNAseq_disk_size": "500",
- "fastqscreen_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqscreen:0.12.0",
- "fastqscreen_cluster_config": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
- "screen_ref_dir": "oss://pgx-reference-data/fastq_screen_reference/",
- "fastq_screen_conf": "oss://pgx-reference-data/fastq_screen_reference/fastq_screen.conf",
- "fastqscreen_disk_size": "200",
- "multiqc_cluster_config": "OnDemand bcs.b2.3xlarge img-ubuntu-vpc",
- "multiqc_docker": "registry-vpc.cn-shanghai.aliyuncs.com/pgx-docker-registry/multiqc:v1.8",
- "multiqc_disk_size": "100",
- "ballgown_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/pgx-ballgown:0.0.1",
- "ballgown_cluster": "OnDemand bcs.a2.large img-ubuntu-vpc"
- }
|
