A Javascript/d3 embeddable plugin for interactively visualizing statistical genetic data from customizable sources.

A Python package for creating high-quality manhattan and Q-Q plots from GWAS results.

kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.

A statistical test of pleiotropic effect of a genetic variant on two traits using GWAS summary statistics

Code and simulations using biologically annotated neural networks

Three bacterial GWAS methods all rolled into one easy-to-use R package

A faster lmm for GWAS. Supports GPU backend.

Code and Tutorials for Running the MArginal ePIstasis Test (MAPIT)

Higher-order genetic interaction discovery with network-based biological priors.

tips and tricks in genome-wide association studies - a tutorial

Code and simulations using interaction-LD score regression

The multivariate MArginal ePIstasis Test

A curated list (with links) of useful tools for genome-wide association analysis.

A Bayesian grouped mixture of regressions model capable of estimating SNP marker effect sizes for multiple outcomes simultaneously

Application of the Simple Sum method for testing co-localization of GWAS with any other SNP-level data (e.g. eQTL data)

Make interactive LocusZoom plots from a local GWAS file

Coupled Mixed Model

R package to perform data pre-processing for more informative bacterial GWAS

Code and simulations using an Ensemble of Single-Effect Neural Networks (ESNN)

Tool for genome wide association studies with Bayesian inference and statistical learning