The package BayPass is a population genomics software which is primarily aimed at identifying genetic markers subjected to selection and/or associated to population-specific covariates (e.g., environmental variables, quantitative or categorical phenotypic characteristics). The underlying models explicitly account for (and may estimate) the covariance structure among the population allele frequencies that originates from the shared history of the populations under study. The manual provides information about the models, about how to format the data file, how to specify the user-defined parameters, and how to interpret the results.
If you have any question, please feel free to contact me. However, I strongly recommend you read the manual first.
Gautier (2015). Genome-Wide Scan for Adaptive Differentiation and Association Analysis with population-specific covariables. Genetics, 201: 1555-1579. https://doi.org/10.1534/genetics.115.181453
Olazcuaga et al. (2020). A whole-genome scan for association with invasion success in the fruit fly Drosophila suzukii using contrasts of allele frequencies corrected for population structure. Molecular Biology and Evolution, 37: 2369-2385. https://doi.org/10.1093/molbev/msaa098
BayPass is a free software under the the GPL- and BSD-compatible CeCILL-B Free Software License Agreement and copyright © 2015 INRAE.
By Mathieu Gautier on 2022-09-29
