Comparing methods for detecting multilocus adaptation with multivariate genotype-environment associations

Finding the Genomic Basis of Local Adaptation: Pitfalls, Practical Solutions, and Future Directions

(2016) Sean Hoban et al.   AMERICAN NATURALIST

Do little interactions get lost in dark random forests?

(2016) Marvin N. Wright et al.   BMC BIOINFORMATICS

Riverscape genomics of a threatened fish across a hydroclimatically heterogeneous river basin

(2016) Chris J. Brauer et al.   MOLECULAR ECOLOGY

Controlling false discoveries in genome scans for selection

(2016) Olivier François et al.   MOLECULAR ECOLOGY

High performance computation of landscape genomic models including local indicators of spatial association

(2016) S. Stucki et al.   Molecular Ecology Resources

Detecting gene-gene interactions using a permutation-based random forest method

(2016) Jing Li et al.   BioData Mining

RAD Sequencing Highlights Polygenic Discrimination of Habitat Ecotypes in the Panmictic American Eel

(2015) Scott A. Pavey et al.   CURRENT BIOLOGY

RAD sequencing reveals within-generation polygenic selection in response to anthropogenic organic and metal contamination in North Atlantic Eels

(2015) M. Laporte et al.   MOLECULAR ECOLOGY

Environmental adaptation in Chinook salmon (Oncorhynchus tshawytscha) throughout their North American range

(2015) Benjamin C. Hecht et al.   MOLECULAR ECOLOGY

A practical guide to environmental association analysis in landscape genomics

(2015) Christian Rellstab et al.   MOLECULAR ECOLOGY

Detecting spatial genetic signatures of local adaptation in heterogeneous landscapes

(2015) Brenna R. Forester et al.   MOLECULAR ECOLOGY

Integration of Random Forest with population-based outlier analyses provides insight on the genomic basis and evolution of run timing in Chinook salmon (Oncorhynchus tshawytscha)

(2015) Marine S. O. Brieuc et al.   MOLECULAR ECOLOGY

Genetic subdivision and candidate genes under selection in North American grey wolves

(2015) Rena M. Schweizer et al.   MOLECULAR ECOLOGY

The relative power of genome scans to detect local adaptation depends on sampling design and statistical method

(2015) Katie E. Lotterhos et al.   MOLECULAR ECOLOGY

LEA: AnRpackage for landscape and ecological association studies

(2015) Eric Frichot et al.   Methods in Ecology and Evolution

Genome-environment associations in sorghum landraces predict adaptive traits

(2015) J. R. Lasky et al.   Science Advances

Using genomics to characterize evolutionary potential for conservation of wild populations

(2014) Katherine A. Harrisson et al.   Evolutionary Applications

Fast and Efficient Estimation of Individual Ancestry Coefficients

(2014) Eric Frichot et al.   GENETICS

Genomic Signature of Adaptation to Climate inMedicago truncatula

(2014) Jeremy B. Yoder et al.   GENETICS

Genome Scans for Detecting Footprints of Local Adaptation Using a Bayesian Factor Model

(2014) Nicolas Duforet-Frebourg et al.   MOLECULAR BIOLOGY AND EVOLUTION

Natural Variation in Abiotic Stress Responsive Gene Expression and Local Adaptation to Climate in Arabidopsis thaliana

(2014) Jesse R. Lasky et al.   MOLECULAR BIOLOGY AND EVOLUTION

Detecting genotypic changes associated with selective mortality at sea in Atlantic salmon: polygenic multilocus analysis surpasses genome scan

(2014) Vincent Bourret et al.   MOLECULAR ECOLOGY

Evaluation of demographic history and neutral parameterization on the performance ofFSToutlier tests

(2014) Katie E. Lotterhos et al.   MOLECULAR ECOLOGY

Genome scan methods against more complex models: when and how much should we trust them?

(2014) Pierre de Villemereuil et al.   MOLECULAR ECOLOGY

Advances and limits of using population genetics to understand local adaptation

(2014) Peter Tiffin et al.   TRENDS IN ECOLOGY & EVOLUTION

Robust Identification of Local Adaptation from Allele Frequencies

(2013) T. Gunther et al.   GENETICS

Ecological determinants of clinal morphological variation in the cranium of the North American gray wolf

(2013) F. Robin O'Keefe et al.   JOURNAL OF MAMMALOGY

Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

(2013) Eric Frichot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Detecting selection along environmental gradients: analysis of eight methods and their effectiveness for outbreeding and selfing populations

(2013) Stéphane De Mita et al.   MOLECULAR ECOLOGY

Ecological genomics of local adaptation

(2013) Outi Savolainen et al.   NATURE REVIEWS GENETICS

Predicting Adaptive Phenotypes From Multilocus Genotypes in Sitka Spruce ( Picea sitchensis ) Using Random Forest

(2013) Jason A. Holliday et al.   G3-Genes Genomes Genetics

SNP interaction detection with Random Forests in high-dimensional genetic data

(2012) Stacey J Winham et al.   BMC BIOINFORMATICS

Community ecology in the age of multivariate multiscale spatial analysis

(2012) S. Dray et al.   ECOLOGICAL MONOGRAPHS

Characterizing genomic variation ofArabidopsis thaliana: the roles of geography and climate

(2012) JESSE R. LASKY et al.   MOLECULAR ECOLOGY

The genetic differentiation at quantitative trait loci under local adaptation

(2012) VALÉRIE LE CORRE et al.   MOLECULAR ECOLOGY

THE GENETIC ARCHITECTURE OF ADAPTATION UNDER MIGRATION-SELECTION BALANCE

(2011) Sam Yeaman et al.   EVOLUTION

Adaptation to Climate Across the Arabidopsis thaliana Genome

(2011) A. M. Hancock et al.   SCIENCE

An application of Random Forests to a genome-wide association dataset: Methodological considerations & new findings

(2010) Benjamin A Goldstein et al.   BMC GENETICS

Using Environmental Correlations to Identify Loci Underlying Local Adaptation

(2010) G. Coop et al.   GENETICS

Genetic markers in the playground of multivariate analysis

(2009) T Jombart et al.   HEREDITY

FORWARD SELECTION OF EXPLANATORY VARIABLES

(2008) F. Guillaume Blanchet et al.   ECOLOGY

Conserving the evolutionary potential of California valley oak (Quercus lobataNée): a multivariate genetic approach to conservation planning

(2007) DELPHINE GRIVET et al.   MOLECULAR ECOLOGY