Graphical Display of Pairwise Linkage Disequilibria Between SNPs

Produces a graphical display, as a heat map, of measures of pairwise linkage disequilibria between single nucleotide polymorphisms (SNPs). Users may optionally include the physical locations or genetic map distances of each SNP on the plot. The methods are described in Shin et al. (2006) . Users should note that the imported package 'snpStats' and the suggested packages 'rtracklayer', 'GenomicRanges', 'GenomInfoDb' and 'IRanges' are all BioConductor packages <>.


Reference manual

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1.0-4 by Brad McNeney, a year ago

Browse source code at

Authors: Ji-Hyung Shin [aut] , Sigal Blay [aut] , Nicholas Lewin-Koh [ctb] , Brad McNeney [aut, cre] , Gloria Yang [ctb] , Matthew Reyers [ctb] , Youwei Yan [ctb] , Jinko Graham [aut]

Documentation:   PDF Manual  

Task views:

GPL-3 license

Imports grid, genetics, snpStats, Rcpp

Suggests rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, lattice, ggplot2, vcfR

Linking to Rcpp

See at CRAN