Explore Workflows

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

Graph Name Retrieved From View
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/litd/analysis-workflows.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: 336f7d1af649f42543baa6be2594cd872919b5b5
workflow graph exome alignment and tumor-only variant detection

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

Path: definitions/pipelines/tumor_only_exome.cwl

Branch/Commit ID: 5fda2d9eb52a363bd51011b3851c2afb86318c0c
workflow graph rest.cwl

https://github.com/yuandou168/FL_workflows.git

Path: workflows/rest.cwl

Branch/Commit ID: 0f9e76d981ca7b100fb9e170519b427926e590a0
workflow graph dragen-germline-pipeline__4.2.4.cwl

https://github.com/umccr/cwl-ica.git

Path: workflows/dragen-germline-pipeline/4.2.4/dragen-germline-pipeline__4.2.4.cwl

Branch/Commit ID: 74bd1b74b5749968b20de2d7d47ff96b9036a8b7
workflow graph SetTelescopeShadowingParameters

Derive parameters relevant for shadowing components of the telescopes.

 https://github.com/gammasim/workflows.git

Path: workflows/SetTelescopeShadowingParameters.cwl

Branch/Commit ID: 789752af87eb190387ff2acb4c95c7a5cdb961e7
workflow graph pass-unconnected.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/pass-unconnected.cwl

Branch/Commit ID: c7c97715b400ff2194aa29fc211d3401cea3a9bf
workflow graph sequence (bam or fastqs) to trimmed fastqs

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

Path: definitions/subworkflows/sequence_to_trimmed_fastq.cwl

Branch/Commit ID: 31a179d7a2f2ac86bfd7fcc4dc79832c3739ae76
workflow graph basename-fields-test.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/basename-fields-test.cwl

Branch/Commit ID: c7c97715b400ff2194aa29fc211d3401cea3a9bf
workflow graph Bisulfite QC tools

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

Path: definitions/subworkflows/bisulfite_qc.cwl

Branch/Commit ID: e649fcb1092905c539be026a3f23c82d5b0871d2
workflow graph bacterial_orthology

https://github.com/ncbi/pgap.git

Path: bacterial_orthology/wf_bacterial_orthology.cwl

Branch/Commit ID: 1cfd46014be8d867044cb10d1ddde0cb3068ee84