Article
Regarding the F-word: The effects of data filtering on inferred genotype-environment associations.
Molecular ecology resources - 1 Jul 2021
Ahrens Collin W, Jordan Rebecca, Bragg Jason, Harrison Peter A, Hopley Tara, Bothwell Helen, Murray Kevin, Steane Dorothy A, Whale John W, Byrne Margaret, Andrew Rose, Rymer Paul D
Abstract excerpt
Genotype-environment association (GEA) methods have become part of the standard landscape genomics toolkit, yet, we know little about how to best filter genotype-by-sequencing data to provide robust inferences for environmental adaptation. In many cases, default filtering thresholds for minor allele frequency and missing data are applied regardless of sample size, having unknown impacts on the results, negatively...
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