Explore Workflows

View already parsed workflows here or click here to add your own

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: 74647cc0f1abac4ee22950cfa89c44cf2ca3cffd
	scatter-gatk-wf-with-interval.cwl	https://github.com/arvados/arvados-tutorial.git Path: WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl Branch/Commit ID: 36de0d12e1cc88d0fd7d6b401df6c6e403f8c809
	kmer_build_tree	https://github.com/ncbi-gpipe/pgap.git Path: task_types/tt_kmer_build_tree.cwl Branch/Commit ID: 71e3a42eadc007b66ef4689086530dfc3123d32f
	WGS processing workflow for single sample	https://github.com/arvados/arvados-tutorial.git Path: WGS-processing/cwl/helper/bwamem-gatk-report-wf.cwl Branch/Commit ID: e3b01c795c65bbfa0c09f9e7b8ffb80a950746d7
	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: 9161ef43f7bf0e22b365fde9ec92edcb8601798e
	Scattered variant calling workflow	https://github.com/arvados/arvados-tutorial.git Path: WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl Branch/Commit ID: ef89d0aabd706c59168537f69742e570373fdd84
	wgs alignment and germline variant detection	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/germline_wgs.cwl Branch/Commit ID: 9161ef43f7bf0e22b365fde9ec92edcb8601798e
	Variant calling workflow for given interval	https://github.com/arvados/arvados-tutorial.git Path: WGS-processing/cwl/helper/gatk-wf-with-interval.cwl Branch/Commit ID: ef89d0aabd706c59168537f69742e570373fdd84
	Immunotherapy Workflow	https://github.com/genome/analysis-workflows.git Path: definitions/pipelines/immuno.cwl Branch/Commit ID: 2e298960837739717ec2928a99c5d811183012e6
	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: 9161ef43f7bf0e22b365fde9ec92edcb8601798e