LEA

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see LEA.

LEA: an R package for Landscape and Ecological Association Studies

Bioconductor version: 3.1

LEA is an R package dedicated to landscape genomics and ecological association tests. LEA can run analyses of population structure and genome scans for local adaptation. It includes statistical methods for estimating ancestry coefficients from large genotypic matrices and evaluating the number of ancestral populations (snmf, pca); and identifying genetic polymorphisms that exhibit high correlation with some environmental gradient or with the variables used as proxies for ecological pressures (lfmm), and controlling the false discovery rate. LEA is mainly based on optimized C programs that can scale with the dimension of very large data sets.

Author: Eric Frichot <eric.frichot at gmail.com>, Olivier Francois <olivier.francois at imag.fr>

Maintainer: Eric Frichot <eric.frichot at gmail.com>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("LEA")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("LEA")

Details

Package Archives

Follow Installation instructions to use this package in your R session.