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

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

The multivariate MArginal ePIstasis Test

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

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

MendelianRandomization is an R package for assessing causal relationships using genetic variants as instrumental variables

mvtests: a suite of functions for testing genetic associations of multiple traits (a.k.a. cross-phenotype associations)

Flashfm: multi-trait fine-mapping that uses GWAS summary statistics from several traits. Updated and more flexible wrapper functions available at jennasimit.github.io/flashfmZero/

MGflashfm: joint fine-mapping of genetic association signals in several traits amongst multiple population groups.

Modified transmission disequilibrium test (TDT) for GWAS using case-parent/control-parent trios.

This is a fork from qqman package

Latent factor GWAS; Multi-trait fine-mapping for any number of uncorrelated traits (and limited number of correlated traits)

Scripts of Final Master Project

Clean and Process GWAS Results for the Drosophila Genetic Reference Panel

SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.

Joint meta-analysis of 2-df gene and gene-environment tests in GWAS.

Perform GWAS on Phenotype Measurements Subject to Limit of Detection for Biobank-Scale Dataset