OmniBioAI

Polygenic Risk Score (PRS) Builder

Build and evaluate PRS from GWAS summary stats + cohort genotypes (PLINK) + phenotype table.

Plugin: prs_builder Category: genomics v1

Refresh

GWAS sumstats (object_id)

Preferred: registry object_id. Alternative: provide a direct path below.

GWAS sumstats path (fallback)

PLINK bfile (object_id)

Should resolve to .bed/.bim/.fam prefix or directory.

PLINK bfile prefix/path (fallback)

Phenotype table (object_id)

TSV/CSV with IID + phenotype + optional covariates.

Phenotype table path (fallback)

Execution

Execute immediately (dev mode)

If enabled, the run is created and you can trigger execution from the run page. (Wire to TES/Celery later.)

IID column

Phenotype column

Covariates (CSV)

SNP column

A1 column

BETA (or OR) column

Treat value as OR (convert to beta=log(OR))

P column

P-thresholds (CSV)

The plugin builds PRS at each threshold and picks the best metric (AUC or R²).

Clumping

Enable LD clumping (plink2 --clump)

Clump kb

Clump r²