LEA is an R package dedicated to landscape genomics and ecological association tests. LEA can run analyses of population structure and genomewide tests for local adaptation. The package includes statistical methods for estimating ancestry coefficients from large genotypic matrices and for evaluating the number of ancestral populations (snmf, pca). It performs statistical tests using latent factor mixed models for identifying genetic polymorphisms that exhibit association with environmental gradients or phenotypic traits (lfmm). LEA is mainly based on optimized C programs that can scale with the dimension of large data sets.
|Author||Eric Frichot <[email protected]>, Olivier Francois <[email protected]>|
|Bioconductor views||Clustering Regression Software StatisticalMethod|
|Maintainer||Eric Frichot <[email protected]>, Olivier Francois <[email protected]>|
|Package repository||View on Bioconductor|
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