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 different SV callers which require bam files as inputs

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

Path: definitions/subworkflows/single_sample_sv_callers.cwl

Branch/Commit ID: 87faba2fff8007ecc95160729b1c7cd0376e46f2
workflow graph exome alignment and germline variant detection

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

Path: definitions/subworkflows/germline_detect_variants.cwl

Branch/Commit ID: 18d8efdc4c97c1c9222f603f529b909b36fa42e7
workflow graph chksum_xam_to_interleaved_fq.cwl

https://github.com/cancerit/workflow-seq-import.git

Path: cwls/chksum_xam_to_interleaved_fq.cwl

Branch/Commit ID: 4765cf6955bdce1320fdead7fe51be0e1b63c33d
workflow graph scatter-wf3.cwl#main

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

Path: cwltool/schemas/v1.0/v1.0/scatter-wf3.cwl

Branch/Commit ID: a94d75178c24ce77b59403fb8276af9ad1998929

Packed ID: main
workflow graph bwa_se.cwl

https://github.com/NCI-GDC/gdc-mirnaseq-cwl.git

Path: workflows/mirnaseq_automation/bwa_se.cwl

Branch/Commit ID: 963f6d502da2c4f152c1654e94008ccf8f6d0db3
workflow graph extract_gencoll_ids

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

Path: task_types/tt_extract_gencoll_ids.cwl

Branch/Commit ID: 7c8eb4d23c3c9859f57421643710c0b6d57b606c
workflow graph Filter single sample sv vcf from paired read callers(Manta/Smoove)

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

Path: definitions/subworkflows/sv_paired_read_caller_filter.cwl

Branch/Commit ID: 9e5f228bc1a3d0dfe950b5d41d7e4319e834a6d4
workflow graph bwa_pe.cwl

https://github.com/NCI-GDC/gdc-mirnaseq-cwl.git

Path: workflows/mirnaseq_automation/bwa_pe.cwl

Branch/Commit ID: 963f6d502da2c4f152c1654e94008ccf8f6d0db3
workflow graph Dockstore.cwl

updated description testing 1.9.2

 https://github.com/NatalieEO/ghapps-single-workflow.git

Path: Dockstore.cwl

Branch/Commit ID: 9bde26076ffce492a1ef8e514d05ebc57053423a
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: 389f6edccab082d947bee9c032f59dbdf9f7c325