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Data & ReproBioinformatics & GenomicsFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction
BI

bio-workflow-management-wdl-workflows

Maintainer FreedomIntelligence · Last updated April 1, 2026

Create WDL workflows for Terra/Cromwell bioinformatics execution.

OpenClawNanoClawAnalysisReproductionbio-workflow-management-wdl-workflows🧠 bioos extended suitebioos extended bioinformatics suitecreate

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-workflow-management-wdl-workflows

Maintainer
FreedomIntelligence
License
MIT
Last updated
April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

  • womtool validate workflow.wdl.
  • womtool inputs workflow.wdl > inputs.json.

Source Doc

Excerpt From SKILL.md

Run with Cromwell (local)

java -jar cromwell.jar run workflow.wdl -i inputs.json

Run with miniwdl (simpler local runner)

miniwdl run workflow.wdl -i inputs.json

Execution Engines

EngineUse Case
CromwellFull-featured, Google Cloud, AWS, HPC
miniwdlLightweight local execution
TerraCloud platform with Cromwell backend
AnVILNIH cloud platform (Terra-based)
dxWDLDNAnexus platform

Use cases

  • Use bio-workflow-management-wdl-workflows for genomics and bioinformatics workflows.
  • Apply bio-workflow-management-wdl-workflows to sequencing, variant, or omics analysis tasks.

Not for

  • Do not rely on this catalog entry alone for installation or maintenance details.

Upstream Related Skills

  • workflow-management/cwl-workflows - CWL alternative
  • workflow-management/snakemake-workflows - Python-based alternative
  • workflow-management/nextflow-pipelines - Groovy-based alternative

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