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inbreedR provides functions and workflows for the analysis of inbreeding and heterozygosity-fitness correlations (HFCs) based on molecular markers such as microsatellites and SNPs. In case of genomic data, it’s most useful for lower density datasets where it is unclear whether genotyped markers represent genome-wide diversity / inbreeding. It has four main application areas:


You can install the stable version of inbreedR from CRAN with:


Or the development version from GitHub with:

# install.packages("remotes")
remotes::install_github("mastoffel/inbreedR", build_vignettes = TRUE, dependencies = TRUE) 
# manual

If you find a bug, please report a minimal reproducible example in the issues.

Get started with inbreedR

To get started read the vignette:

vignette("inbreedR_step_by_step", package = "inbreedR")


Stoffel, M. A., Esser, M., Kardos, M., Humble, E., Nichols, H., David, P., & Hoffman, J. I. (2016). inbreedR: an R package for the analysis of inbreeding based on genetic markers. Methods in Ecology and Evolution, 7(11), 1331-1339.