gwas-database
NHGRI-EBI GWAS Catalog REST API for SNP-trait associations from published GWAS. Query studies, associations, variants, traits, genes, summary stats. Build PRS candidates, analyze pleiotropy, fetch stats for Manhattan plots. No auth.
npx skills add BioTender-max/awesome-bio-agent-skills --skill gwas-database --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# GWAS Catalog Database — SNP-Trait Association Queries ## Overview The NHGRI-EBI GWAS Catalog is a curated collection of published genome-wide association studies, mapping SNP-trait associations with genomic context. The REST API provides programmatic access to studies, associations, variants, traits, genes, and summary statistics. All responses are HAL+JSON with embedded `_links` for pagination. ## When to Use - Finding genetic variants associated with a disease or trait (e.g., "which SNPs are linked to type 2 diabetes?") - Retrieving genome-wide significant associations for a specific variant (rs ID) - Exploring the genetic architecture of complex traits (number of loci, effect sizes) - Checking variant pleiotropy (how many traits a single SNP affects) - Downloading summary statistics for meta-analysis or polygenic risk score construction - Identifying published GWAS studies by disease, gene, or PubMed ID - Cross-referencing EFO trait ontology terms with GWAS evidence - Building candidate gene lists from GWAS association regions - For **drug target validation from GWAS hits**, use `opentargets-database` instead - For **variant functional annotation** (consequence prediction, reg
- Overview
- When to Use
- Prerequisites
- Quick Start
- Core API
- Module 1: Study Search
- Module 2: Association Queries
- Module 3: Variant Lookup
- Module 4: Trait Search
- Module 5: Summary Statistics
- Module 6: Gene and Publication Search
- Key Concepts
- Data Entities and Relationships
- HAL+JSON Response Structure
pip install requests matplotlib numpy
What does the gwas-database skill do?
NHGRI-EBI GWAS Catalog REST API for SNP-trait associations from published GWAS. Query studies, associations, variants, traits, genes, summary stats. Build PRS candidates, analyze pleiotropy, fetch stats for Manhattan plots. No auth.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill gwas-database --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.