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statgenIBD

statgenIBD is an R package for calculating Identity By Descent (IBD) probabilities for biparental, three and four-way crosses. Calculations are based on Hidden Markov Models (HMM) and inheritance vectors. The HMM calculations are implemented in Rcpp/C++.

For more complicated pedigrees RABBIT can be used to calculate the IBDs.

Installation

Install from CRAN:

install.packages("statgenIBD")

Install latest development version from GitHub (requires remotes package):

remotes::install_github("Biometris/statgenIBD", ref = "develop", dependencies = TRUE)

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