LDlinkR - An R Package for Calculating Linkage Disequilibrium
Repo for the R package LDlinkR
LDlinkR 
LDlink webtool is at https://ldlink.nci.nih.gov/
Synopsis
This package provides programmatic access to the LDlink API using the R console. It facilitates researchers who are interested in performing batch queries. LDlink is a suite of web-based applications designed to easily and efficiently interrogate linkage disequilibrium in human population groups. All population genotype data originates from Phase 3 (Version 5) of the 1000 Genomes Project and variant RS numbers are indexed based on dbSNP 151.
Installation
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Please register for an access token which is required to use LDlinkR at https://ldlink.nci.nih.gov/?tab=apiaccess
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install.packages("devtools")
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devtools::install_github("CBIIT/LDlinkR")
Contributors
Timothy A. Myers, Stephen J. Chanock and Mitchell J. Machiela