MMD: Minimal Multilocus Distance (MMD) for Source Attribution and Loci Selection

The aim of the package is two-fold: (i) To implement the MMD method for attribution of individuals to sources using the Hamming distance between multilocus genotypes. (ii) To select informative genetic markers based on information theory concepts (entropy, mutual information and redundancy). The package implements the functions introduced by Perez-Reche, F. J., Rotariu, O., Lopes, B. S., Forbes, K. J. and Strachan, N. J. C. Mining whole genome sequence data to efficiently attribute individuals to source populations. Scientific Reports 10, 12124 (2020) <doi:10.1038/s41598-020-68740-6>. See more details and examples in the README file.

Version: 1.0.0
Imports: e1071, plyr, bigmemory
Suggests: knitr, rmarkdown
Published: 2021-01-26
Author: Francisco Perez-Reche [aut, cre]
Maintainer: Francisco Perez-Reche <fperez-reche at abdn.ac.uk>
License: GPL-3
NeedsCompilation: no
CRAN checks: MMD results

Documentation:

Reference manual: MMD.pdf
Vignettes: Tutorial for the R MMD package

Downloads:

Package source: MMD_1.0.0.tar.gz
Windows binaries: r-devel: MMD_1.0.0.zip, r-release: MMD_1.0.0.zip, r-oldrel: MMD_1.0.0.zip
macOS binaries: r-release (arm64): MMD_1.0.0.tgz, r-release (x86_64): MMD_1.0.0.tgz, r-oldrel: MMD_1.0.0.tgz

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