PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files

Causal Mixture Model for GWAS summary statistics

LDlinkR

Fast calculations of linkage-disequilibrium in large-scale human cohorts

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

🔖 Get SNP proxies from the 1000 Genomes Project.

R front-end for TASSEL

LDlink is a suite of web-based applications designed to easily and efficiently interrogate linkage disequilibrium in population groups. Each included application is specialized for querying and displaying unique aspects of linkage disequilibrium.

Adjacency-constrained hierarchical clustering of a similarity matrix

Modeling and Analysis of (Statistical) Genetics data in python

Genomewide Epistasis Analysis on Bacteria

ldshrink: a one-stop R package for shrinkage estimation of linkage disequilibrium

Efficient Local Ancestry Inference

📙 Explore 1000 Genomes variant data with JavaScript.

This is web server API for http://topld.genetics.unc.edu

GWAS Pre-Processing Pipeline

ld-tools: toolkit for linkage disequilibrium calculation designed to work locally

A python library to develop genomic data simulators

Get information about direction of agreement for any two lists of SNPs, based on LDlink and plink

Generating a weighed average of LDSTORE matrices for locus-based fine-mapping.