Alim430 BioResearch Agent — Causal Inference (MR) Skill
Capability
Runs a reproducible two-sample Mendelian randomization: GWAS summary statistics (simulated by default) → genome-wide significant SNP instruments → IVW causal estimate → leave-one-out sensitivity → scatter / funnel plots. Returns a quantitative causal estimate, not a claim.
Run
bioresearch run causal --exposure BMI --outcome "Type 2 Diabetes"
Outputs (in outputs/causal/)
causal_ivw_results.csv— IVW estimate, SE, p-valuecausal_loo_results.csv— leave-one-out sensitivitycausal_mr_scatter.png— MR scatter plot (IVW slope labeled)causal_mr_funnel.png— funnel plotcausal_interpretation.txt— interpretation notes
Note
This skill dispatches to the framework's causal workflow. It adds no analysis of its own;
all MR statistics run in the workflow modules. By default uses simulated GWAS data (no external
credentials required).