Stars
Enrichment Networks for Pathway Enrichment Analysis
A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/
This imputation pipeline utilizes SHAPEIT4.2.2 for phasing and Impute5_v1.1.5 for imputation via bash scripting.
Overview of the data QC, code, and GWAS summary output from the 2017 UK Biobank data release
Report reverse and ambiguous strand SNPs in GWAS data
A repository containing various scripts useful for performing quality control on data from genome-wide association studies and visualizing results
A step-by-step tutorial for Weighted correlation network analysis (WGCNA)
A tool to build a website to browse hundreds or thousands of GWAS.
Easily download publicly available GWAS summary statistics.
A software package for calculating, applying, evaluating and plotting the results of polygenic risk scores
R package to perform Bayesian Genome-Wide Association Studies
LocusCompareR is a R package with visualization tools for comparing two genetic association datasets.
Cloud-native genomic dataframes and batch computing
https://filippob.github.io/introduction_to_gwas/
A pipeline for Human GWAS analysis that accomodates both Affymetrix (raw .CEL files) and Illumina (Plink binaries) data
A Javascript/d3 embeddable plugin for interactively visualizing statistical genetic data from customizable sources.
Human disease network based on GWAS loci
An R package for fast and efficient visualizing of GWAS results using Q-Q and Manhattan plots directly from PLINK output files.
Fine-tuning polygenic risk score models using GWAS summary statistics
Basic and fast GWAS functions for QQ and Manhattan plots (incl. gene names)
Michigan Imputation Server: A new web-based service for imputation that facilitates access to new reference panels and greatly improves user experience and productivity
A Python package for creating high-quality manhattan and Q-Q plots from GWAS results.
🗻 Fuji plot—a circos representation of multiple GWAS results— 🗻
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.