rdadapt

R package rdadapt was developed to facilitate the exploration and projection of the gene ~ environment relationship across current and future landscapes. The package provides various statistical tools to conduct landscape genomic analyses going from identifying the genetic bases of adaptation within a species to predict future population (mal)adaptation to climate change.

A tutorial for rdadapt is available here.

News: A paper is in preparation describing version 1 of rdadapt.

Installation

# From Github
library(devtools)
install_github("landscape-genomics/rdadapt")

References

The rdadapt package was inspired from various studies:

• Capblancq T., Luu K., Blum M.G. & Bazin E. (2018) Evaluation of redundancy analysis to identify signature of local adaptation. Molecular Ecology Ressources 18(2): 1223-1233.
• Capblancq T., Morin X., Gueguen M., Renaud J., Lobreaux S. & Bazin E. (2020) Climate associated genetic variation in Fagus sylvatica and potential responses to climate change in the French Alps. Journal of Evolutionary Biology 33(6): 783-796.
• Capblancq T. & Forester B. (2021) Redundancy Analysis: a Swiss Army knife for landscape genomics. Methods in Ecology and Evolution 12(12): 2298-2309.
• Capblancq T., Lachmuth S., FitzpatrickK M. C., & Keller S. R. (2023) From common garden to candidate genes: exploring local adaptation to climate in red spruce. New Phytologist 237 (5), 1590-1605.
• Hoste A., Capblancq T., Broquet T., et al. (2024) Projection of current and future distribution of adaptive genetic units in an alpine ungulate. Heredity 132, 54–66.