scientific-statgen-playbook (Plugin Format)

scientific-statgen-playbook (Plugin Format)

This repository hosts two plugins for downstream statistical genetics workflows.

Scope note: this repository hosts two plugins:

1. statgen-analysis — GWAS analysis, fine-mapping, heritability, TWAS
2. statgen-validation — biological validation via OpenTargets, GWAS Catalog, Ensembl

Dependency contract:

1. statgen-analysis is self-contained for downstream analysis workflows.
2. statgen-validation is self-contained for biological validation queries.
3. Both plugins complement each other: run analysis first, then validate findings.
4. For upstream model design and structured development workflows, install scientific-plan-execute from the scientific-software-playbook.

Plugin Assets (Source Of Truth)

Skills (statgen-analysis)

• statgen-analysis: plugins/statgen-analysis/skills/statgen-analysis/SKILL.md

Skills (statgen-validation)

• biological-validation: plugins/statgen-validation/skills/biological-validation/SKILL.md

Assets (statgen-analysis)

• Scripts: plugins/statgen-analysis/scripts/
• Reference docs: plugins/statgen-analysis/reference/
• Visualization: plugins/statgen-analysis/visualization/
• Examples: plugins/statgen-analysis/examples/
• Tests: plugins/statgen-analysis/tests/

Assets (statgen-validation)

• Scripts: plugins/statgen-validation/scripts/
• Reference docs: plugins/statgen-validation/reference/
• Tests: plugins/statgen-validation/tests/