lfmm.data

example_lfmm


Description of the <code>lfmm</code> format.
The <code>lfmm</code> format can be used as an input format 
for genotypic matrices in the functions <code><a rd-options="" href="/link/snmf?package=LEA&version=1.4.0" data-mini-rdoc="LEA::snmf">snmf</a></code>,
<code><a rd-options="" href="/link/lfmm?package=LEA&version=1.4.0" data-mini-rdoc="LEA::lfmm">lfmm</a></code>, and <code><a rd-options="" href="/link/pca?package=LEA&version=1.4.0" data-mini-rdoc="LEA::pca">pca</a></code>. 


format

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.

Eric Frichot

LEA: an R package for Landscape and Ecological Association
Studies

lfmm.data function


Description of the <code>lfmm</code> format.
The <code>lfmm</code> format can be used as an input format 
for genotypic matrices in the functions <code><a rd-options='' href='snmf'>snmf</a></code>,
<code><a rd-options='' href='lfmm'>lfmm</a></code>, and <code><a rd-options='' href='pca'>pca</a></code>. 


lfmm.data: Input file for `lfmm`

Description

Arguments

Details

See Also