Explore Workflows

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

Graph Name Retrieved From View
workflow graph Subworkflow to allow calling cnvkit with cram instead of bam files

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

Path: definitions/subworkflows/cram_to_cnvkit.cwl

Branch/Commit ID: f42c889734c8f709ad2fd9090493bcaac8326c98
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: 2e0562a5c3cd7aac24af4c622a5ae68a7fb23a71
workflow graph prefactor_calibrator.cwl

https://git.astron.nl/eosc/prefactor3-cwl.git

Path: workflows/prefactor_calibrator.cwl

Branch/Commit ID: 5f6da86a561d1b1c5b7ef56dc8bbbb1f1d7e9cbe
workflow graph exome alignment and somatic variant detection for cle purpose

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

Path: definitions/pipelines/somatic_exome_cle.cwl

Branch/Commit ID: 77ec4f26eb14ed82481828bd9f6ef659cfd8b40f
workflow graph Hello World

Outputs a message using echo

 https://github.com/common-workflow-language/cwltool.git

Path: tests/wf/hello-workflow.cwl

Branch/Commit ID: 5bdb3d3dd47d8d1b3a1685220b4b6ce0f94c055e
workflow graph bam to trimmed fastqs and biscuit alignments

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

Path: definitions/subworkflows/bam_to_trimmed_fastq_and_biscuit_alignments.cwl

Branch/Commit ID: a08de598edc04f340fdbff76c9a92336a7702022
workflow graph exome alignment with qc

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

Path: definitions/pipelines/alignment_exome.cwl

Branch/Commit ID: a08de598edc04f340fdbff76c9a92336a7702022
workflow graph uncollapsed_bam_generation.cwl

https://github.com/msk-access/uncollapsed_bam_generation.git

Path: uncollapsed_bam_generation.cwl

Branch/Commit ID: e55c072d59343c55581261a8ff84ebed71404500
workflow graph exome alignment and germline variant detection

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

Path: definitions/subworkflows/germline_detect_variants.cwl

Branch/Commit ID: a08de598edc04f340fdbff76c9a92336a7702022
workflow graph readme-assembly-workflow.cwl

https://github.com/nal-i5k/organism_onboarding.git

Path: flow_create_readme/readme-assembly-workflow.cwl

Branch/Commit ID: 0b58c250e8ab7c5efae29443f08ea74316127041