Follow ../AGENTS.md. The user explicitly authorizes committing PRS TSV/CSV results and pushing this work. Keep small score-only BrNum tables in results/; keep genotype/GWAS/weight BCFs, indexes, downl
Imported from LieberInstitute/gwas-pgs-prs (personality/joint-pgs/AGENTS.md). Install upstream with npx skills add LieberInstitute/gwas-pgs-prs --skill joint-pgs. Copyright stays with the author.
Joint EUR+AFR LDGM-BLUP with paired ancestry-specific posterior weights
Follow ../AGENTS.md. The user explicitly authorizes committing PRS TSV/CSV
results and pushing this work. Keep small score-only BrNum tables in results/;
keep genotype/GWAS/weight BCFs, indexes, downloads, full donor metadata, logs
and other large binary products in ignored generated/ and gwas/ storage.
Do not modify outputs of the original or EUR-for-all analyses.
Document all model/LD/prior settings before fitting; no phenotype-based model
selection. Preserve per-SNP Nhat, exact GRCh38 allele alignment and target DS.
Test key steps and independently validate score sums, site counts and donor IDs.
Record successful major steps in worklog/ and generated/progress.md.
Use it
Copy one of these into your project. Installing also returns the manifest and these snippets.
yaml
targets:
- https://api.opensmartroute.ai/api/v1/registry/lieberinstitute-gwas-pgs-prs-joint-pgs/manifest # or paste the manifest below
Manifest
An Open Capability Manifest: the router reads it to know what this does, what it costs and when to pick it.
{
"ocm": "1",
"id": "lieberinstitute-gwas-pgs-prs-joint-pgs",
"kind": "skill",
"name": "joint-pgs",
"description": "Follow ../AGENTS.md. The user explicitly authorizes committing PRS TSV/CSV results and pushing this work. Keep small score-only BrNum tables in results/; keep genotype/GWAS/weight BCFs, indexes, downloads, full donor metadata, logs and other large binary products in ignored generated/ and gwas/ storage. Do not modify outputs of the original or EUR-for-all analyses.",
"publisher": "LieberInstitute",
"version": "1.0.0",
"capabilities": {
"domains": [
"data_analysis"
],
"tags": [
"skill-md",
"github-agents"
],
"languages": [
"en"
]
},
"quality_prior": 0.6,
"examples": [
"Follow ../AGENTS.md. The user explicitly authorizes committing PRS TSV/CSV results and pushing this work. Keep small score-only BrNum tables in results/; keep genotype/GWAS/weight BCFs, indexes, downloads, full donor metadata, logs and other large binary products in ignored generated/ and gwas/ storage. Do not modify outputs of the original or EUR-for-all analyses."
],
"primary": false,
"metadata": {
"source": {
"provider": "github-agents",
"repository": "https://github.com/LieberInstitute/gwas-pgs-prs",
"path": "personality/joint-pgs/AGENTS.md",
"ref": "579d12a932a3986254c0b451858b4338a0f444e6",
"url": "https://github.com/LieberInstitute/gwas-pgs-prs/blob/579d12a932a3986254c0b451858b4338a0f444e6/personality/joint-pgs/AGENTS.md",
"key": "LieberInstitute/gwas-pgs-prs/personality/joint-pgs/AGENTS.md"
}
},
"instructions": "# Joint EUR+AFR LDGM-BLUP with paired ancestry-specific posterior weights\n\nFollow ../AGENTS.md. The user explicitly authorizes committing PRS TSV/CSV\nresults and pushing this work. Keep small score-only BrNum tables in results/;\nkeep genotype/GWAS/weight BCFs, indexes, downloads, full donor metadata, logs\nand other large binary products in ignored generated/ and gwas/ storage.\nDo not modify outputs of the original or EUR-for-all analyses.\n\nDocument all model/LD/prior settings before fitting; no phenotype-based model\nselection. Preserve per-SNP Nhat, exact GRCh38 allele alignment and target DS.",
"cost": {
"context_tokens": 187
}
}
Fetch it by URL: GET /api/v1/registry/lieberinstitute-gwas-pgs-prs-joint-pgs/manifest?version=1.0.0
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