LDheatmap: 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) <doi:10.18637/jss.v016.c03>. Users should note that the imported package 'snpStats' and the suggested packages 'rtracklayer', 'GenomicRanges', 'GenomInfoDb' and 'IRanges' are all BioConductor packages <https://bioconductor.org>.

Version: 1.0-4
Depends: R (≥ 4.0)
Imports: grid, genetics, snpStats, Rcpp
LinkingTo: Rcpp
Suggests: rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, lattice, ggplot2, vcfR
Published: 2020-10-08
Author: 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]
Maintainer: Brad McNeney <mcneney at sfu.ca>
License: GPL-3
URL: https://sfustatgen.github.io/LDheatmap/
NeedsCompilation: yes
Citation: LDheatmap citation info
Materials: ChangeLog
CRAN checks: LDheatmap results

Documentation:

Reference manual: LDheatmap.pdf
Vignettes: LDheatmap

Downloads:

Package source: LDheatmap_1.0-4.tar.gz
Windows binaries: r-devel: LDheatmap_1.0-4.zip, r-devel-UCRT: LDheatmap_1.0-4.zip, r-release: LDheatmap_1.0-4.zip, r-oldrel: LDheatmap_1.0-4.zip
macOS binaries: r-release (arm64): LDheatmap_1.0-4.tgz, r-release (x86_64): LDheatmap_1.0-4.tgz, r-oldrel: LDheatmap_1.0-4.tgz
Old sources: LDheatmap archive

Linking:

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