SNPLINK: multipoint linkage analysis of densely distributed SNP data incorporating automated linkage disequilibrium removal | Zendy

Emily L. Webb | Zendy; Gabrielle S. Sellick | Zendy; Richard S. Houlston | Zendy

Open Access

SNPLINK: multipoint linkage analysis of densely distributed SNP data incorporating automated linkage disequilibrium removal

Author(s) -

Emily L. Webb,

Gabrielle S. Sellick,

Richard S. Houlston

Publication year - 2005

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti449

Subject(s) - linkage (software) , linkage disequilibrium , perl , tag snp , snp , genetic linkage , single nucleotide polymorphism , computer science , snp genotyping , computational biology , genetics , biology , programming language , genotype , gene

SNPLINK is a Perl script that performs full genome linkage analysis of high-density single nucleotide polymorphism (SNP) marker sets. The presence of linkage disequilibrium (LD) between closely spaced SNP markers can falsely inflate linkage statistics. SNPLINK removes LD from the marker sets in an automated fashion before carrying out linkage analysis. SNPLINK can compute both parametric and non-parametric statistics, utilizing the freely available Allegro and Merlin software. Graphical outputs of whole genome multipoint linkage statistics are provided allowing comparison of results before and after the removal of LD.

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