The qtl2fst package uses the fst package to store genotype probabilities in a set of files for rapid access but reduced memory usage. It is fully integrated with R/qtl2, and is based on the qtl2feather package which stores files in the feather format.
install.packages(c("fst", "dplyr", "devtools"))
Once you have installed these, install qtl2fst from GitHub:
To also install vignettes, include
devtools::install_github("kbroman/qtl2fst", build_vignettes = TRUE)
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