17 lines
754 B
Markdown
17 lines
754 B
Markdown
# EMMAX Manhattan and QQ plotting skill
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Use this skill only for the PlantAI `gwas_emplot` stage.
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- Canonical runner: `python -m apps.cli.run_gwas_emmax_plot`
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- Dependencies: `gwas_emmax`
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- Exact input role: `emmax_pvalues` from the successful, identity-matched
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`gwas_emmax` Manifest.
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- Scientific outputs: `emmax_manhattan`, `emmax_qq`.
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- Evidence outputs: `manifest`, `report`, `environment`.
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Resolve only that authoritative Manifest; never scan for a latest association
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file or accept caller-selected lineage. Reject hash, scope, or model-lineage
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mismatches. Write standard logs, report, environment, Manifest v1, and the
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stage-local runner-only reproducibility bundle. Do not copy raw analysis code or
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raw underlying tool commands into `final/`.
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