lfmm: Latent Factor Mixed Models

Fast and accurate inference of gene-environment associations (GEA) in genome-wide studies (Caye et al., 2019, <doi:10.1093/molbev/msz008>). We developed a least-squares estimation approach for confounder and effect sizes estimation that provides a unique framework for several categories of genomic data, not restricted to genotypes. The speed of the new algorithm is several times faster than the existing GEA approaches, then our previous version of the 'LFMM' program present in the 'LEA' package (Frichot and Francois, 2015, <doi:10.1111/2041-210X.12382>).

Version: 1.1
Depends: R (≥ 3.2.3)
Imports: foreach, rmarkdown, knitr, MASS, RSpectra, stats, ggplot2, readr, methods, purrr, Rcpp
LinkingTo: RcppEigen, Rcpp
Suggests: testthat
Published: 2021-06-30
DOI: 10.32614/CRAN.package.lfmm
Author: Basile Jumentier [aut, cre], Kevin Caye [ctb], Olivier Fran├žois [ctb]
Maintainer: Basile Jumentier <basile.jumentier at gmail.com>
BugReports: https://github.com/bcm-uga/lfmm/issues
License: GPL-3
NeedsCompilation: yes
CRAN checks: lfmm results


Reference manual: lfmm.pdf
Vignettes: Overview of R Package lfmm


Package source: lfmm_1.1.tar.gz
Windows binaries: r-devel: lfmm_1.1.zip, r-release: lfmm_1.1.zip, r-oldrel: lfmm_1.1.zip
macOS binaries: r-release (arm64): lfmm_1.1.tgz, r-oldrel (arm64): lfmm_1.1.tgz, r-release (x86_64): lfmm_1.1.tgz, r-oldrel (x86_64): lfmm_1.1.tgz
Old sources: lfmm archive


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