Explore Workflows

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

Graph Name Retrieved From View
workflow graph wgs alignment and germline variant detection

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/germline_wgs.cwl

Branch/Commit ID: 9161ef43f7bf0e22b365fde9ec92edcb8601798e
workflow graph 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
workflow graph Immunotherapy Workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/immuno.cwl

Branch/Commit ID: 2e298960837739717ec2928a99c5d811183012e6
workflow graph 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
workflow graph fastq2fasta.cwl

https://github.com/hpobio-lab/viral-analysis.git

Path: cwl/fastq2fasta/fastq2fasta.cwl

Branch/Commit ID: 24465ba219711f2828e633d25d9f183e0f0eaccd
workflow graph 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: b50ffeeeae865d0780ca03c5a3f5065eeeb758e4
workflow graph Variant calling workflow scattered over interval splits

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl

Branch/Commit ID: e3b01c795c65bbfa0c09f9e7b8ffb80a950746d7
workflow graph Detect Variants workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/detect_variants.cwl

Branch/Commit ID: 9161ef43f7bf0e22b365fde9ec92edcb8601798e
workflow graph Whole genome alignment and somatic variant detection

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/somatic_wgs.cwl

Branch/Commit ID: 700e73aaed6db1ad538dd27b2e1709f436ad3edb
workflow graph CODEX analysis pipeline using Cytokit

https://github.com/hubmapconsortium/codex-pipeline.git

Path: pipeline.cwl

Branch/Commit ID: a04e55b0fd73afbed8d29b2040dd9c438ba666a6