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

LDlinkR

Causal Mixture Model for GWAS summary statistics

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

🔖 Get SNP proxies from the 1000 Genomes Project.

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

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

Genomewide Epistasis Analysis on Bacteria

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

📙 Explore 1000 Genomes variant data with JavaScript.

Efficient Local Ancestry Inference

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

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.

A python library to develop genomic data simulators

Simulator for the Wright-Fisher model of genetic drift for haploid and diploid populations