Explore Workflows

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

Graph Name Retrieved From View
workflow graph Subworkflow that runs cnvkit in single sample mode and returns a vcf file

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

Path: definitions/subworkflows/cnvkit_single_sample.cwl

Branch/Commit ID: 5fda2d9eb52a363bd51011b3851c2afb86318c0c
workflow graph record-in-secondaryFiles-wf.cwl

https://github.com/common-workflow-language/cwl-v1.1.git

Path: tests/record-in-secondaryFiles-wf.cwl

Branch/Commit ID: b1d4a69df86350059bd49aa127c02be0c349f7de
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: 5fda2d9eb52a363bd51011b3851c2afb86318c0c
workflow graph preparation_workflow.cwl

https://github.com/NCI-GDC/gatk4_mutect2_cwl.git

Path: utils-cwl/subworkflow/preparation_workflow.cwl

Branch/Commit ID: 138d484362084dfc97d9fb7d839855b4bc2c5599
workflow graph Chipseq alignment for nonhuman with qc and creating homer tag directory

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

Path: definitions/pipelines/chipseq_alignment_nonhuman.cwl

Branch/Commit ID: 5fda2d9eb52a363bd51011b3851c2afb86318c0c
workflow graph chipseq-pe.cwl

Runs ChIP-Seq BioWardrobe basic analysis with paired-end input data files.

https://github.com/Barski-lab/workflows.git

Path: workflows/chipseq-pe.cwl

Branch/Commit ID: 8587882f145d3eb8e258e7bf819a94f8dd666dbf
workflow graph helloworld-htcondorcern.cwl

https://github.com/reanahub/reana-demo-helloworld.git

Path: workflow/cwl/helloworld-htcondorcern.cwl

Branch/Commit ID: 39d64e14294db8ccf9fe0b256231d0a819f53cd4
workflow graph FASTQ Download

FASTQ Download Downloads FASTQ files from the provided SRR identifiers

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

Path: workflows/fastq-download.cwl

Branch/Commit ID: 12e5256de1b680c551c87fd5db6f3bc65428af67
workflow graph Cell Ranger ARC Count Gene Expression + ATAC

Cell Ranger ARC Count Gene Expression + ATAC ============================================

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

Path: workflows/cellranger-arc-count.cwl

Branch/Commit ID: 12e5256de1b680c551c87fd5db6f3bc65428af67
workflow graph STAR-RNA-Seq alignment and transcript/gene abundance workflow

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

Path: definitions/pipelines/rnaseq_star_fusion.cwl

Branch/Commit ID: 97572e3a088d79f6a4166385f79e79ea77b11470