Explore Workflows

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Graph	Name	Retrieved From	View
	exome alignment and germline variant detection, with optitype for HLA typing	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/germline_exome_hla_typing.cwl Branch/Commit ID: c23dc7f113ca0b0a3127a5d6c696e98d4799460c
	exome alignment and germline variant detection, with optitype for HLA typing	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/germline_exome_hla_typing.cwl Branch/Commit ID: 54846feabbf008c1946db2a86d87252e0edd95b0
	exome alignment and germline variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/subworkflows/germline_detect_variants.cwl Branch/Commit ID: 2ae0a374fab650757cdae4391c8cbd32f02edf97
	Detect Variants workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/detect_variants.cwl Branch/Commit ID: 038cb3617a1966a1057386adcde97ce55d9e1139
	somatic_exome: exome alignment and somatic variant detection somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: 54846feabbf008c1946db2a86d87252e0edd95b0
	bam2fasta.cwl	https://github.com/arvados/bh20-seq-resource.git Path: workflows/fastq2fasta/bam2fasta.cwl Branch/Commit ID: 30f3f8b0e9efbc954518fc8ea621b53c9591c83a
	somatic_exome: exome alignment and somatic variant detection somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/somatic_exome.cwl Branch/Commit ID: eb0092603bf57acb7bda08a06e4f2f1e2a8c9b6d
	no-outputs-wf.cwl Workflow without outputs.	https://github.com/common-workflow-language/common-workflow-language.git Path: v1.0/v1.0/no-outputs-wf.cwl Branch/Commit ID: ca8e6661b5cab1f017e5bc4024650722dae4d50b
	sec-wf.cwl	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/sec-wf.cwl Branch/Commit ID: e4a52682f3bdefafe5c27e32983fed31116ac489
	revsort.cwl Reverse the lines in a document, then sort those lines.	https://github.com/common-workflow-language/cwltool.git Path: tests/wf/revsort.cwl Branch/Commit ID: d7cd45f7072960d264962ecc5a04d7c219f65c06