This is a general (somewhat comprehensive) description of the LNG GWAS pipeline which can be used to guide researchers on how-to run a GWAS.

GWAS summary statistics files QC tool

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

From QC to summary statistics

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

Genetic correlation calculation pipeline via summary statistics for PheWeb

GWAS analysis process based on EMMAX software

Make interactive LocusZoom plots from a local GWAS file

We suggest a novel way of defining NCD as a continuous phenotype, and we employ a mixed linear model to account for pronounced population stratification in the South Asian sample, which is more diverse than European samples, for example.

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

Analysis code and processing stages for Genome-Wide meta-analysis of low grip strength in older people.

GWAS Pre-Processing Pipeline

DRAGGER: Drug Repositioning by Analysis of GWAS and Gene Expression in R (maintained version). For publication version, see https://github.com/AEstebanMar/DAGGER-publication

A pipeline to predict risk genes, implicated cell types and drugs for repurposing based on known risk genes (derived from GWAS) for complex traits.

genome-wide association study (GWAS) workflows

A shinyapp for performing GWAS in rapeseed based on a core collection

A web service to upload and share GWAS results with LocusZoom.js

Code repo for research project with Dr. Gissette Soffer and Dr. Badri Vardarajan at Columbia Medical Center

Package to perform a GWAS pipeline