Explore Workflows

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

Path: tests/count-lines11-wf-noET.cwl

Branch/Commit ID: main

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

Path: tests/wf/default-dir5.cwl

Branch/Commit ID: main

Workflow runs [STAR](https://github.com/alexdobin/STAR) v2.5.3a (03/17/2017) PMID: [23104886](https://www.ncbi.nlm.nih.gov/pubmed/23104886) to build indices for reference genome provided in a single FASTA file as fasta_file input and GTF annotation file from annotation_gtf_file input. Generated indices are saved in a folder with the name that corresponds to the input genome.

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

Path: workflows/star-index.cwl

Branch/Commit ID: master

This workflow will run OxoG, variantbam, and annotate. Run this as `dockstore --script --debug workflow launch --descriptor cwl --local-entry --entry ./oxog_varbam_annotate_wf.cwl --json oxog_varbam_annotat_wf.input.json `

https://github.com/ICGC-TCGA-PanCancer/pcawg-snv-indel-annotation.git

Path: pcawg_annotate_wf.cwl

Branch/Commit ID: develop

https://github.com/FarahZKhan/scalability-reproducibility-chapter.git

Path: CWL/workflow_simple.cwl

Branch/Commit ID: ProvCaptureDemo

https://github.com/sevenbridges-openworkflows/Broad-Best-Practice-Germline-snps-and-indels-variant-calling-CWL1.0-workflow-GATK-4.1.0.0.git

Path: gatk-best-practice-generic-germline-short-variant-per-sample-cal_decomposed.cwl

Branch/Commit ID: master

https://github.com/ProteinsWebTeam/ebi-metagenomics-cwl.git

Path: workflows/emg-pipeline-v3.cwl

Branch/Commit ID: 8515542

https://github.com/ddbj/human-reseq.git

Path: Workflows/bams2gvcf.wBQSR.multisamples.cwl

Branch/Commit ID: master

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

Path: definitions/pipelines/detect_variants.cwl

Branch/Commit ID: 8da2b1cd6fa379b2c22baf9dad762d39630e6f46

INTEGRATE workflow: untar, tophat align, samtools index, Integrate fusion

https://github.com/Jeltje/integrate.git

Path: Dockstore.cwl

Branch/Commit ID: master