LDlink / LDlinkR 1.1.2

:: DESCRIPTION

LDlink is a suite of web-based applications designed to easily and efficiently interrogate linkage disequilibrium in population groups.

LDhap: Calculate population specific haplotype frequencies of all haplotypes observed for a list of query SNPs. Input is a list of SNP RS numbers (one per line) and a population group.

LDmatrix: Create an interactive heatmap matrix of pairwise linkage disequilibrium statistics. Input is a list of SNP RS numbers (one per line) and a population group.

LDpair: Investigate correlated alleles for a pair of SNPs in high LD. Input is two RS numbers and a population group.

LDproxy: Interactively explore proxy and putatively functional SNPs for a query SNP. Input is an RS number and a population group.

::DEVELOPER

Mitchell Machiela in collaboration with NCI’s Center for Biomedical Informatics and Information Technology (CBIIT).

:: SCREENSHOTS

N/A

:: REQUIREMENTS

• Web Browser
• R

:: DOWNLOAD

LDlinkR

:: MORE INFORMATION

Citation

LDlink: A web-based application for exploring population-specific haplotype structure and linking correlated alleles of possible functional variants.
Machiela MJ, Chanock SJ.
Bioinformatics. 2015 Jul 2. pii: btv402.