R/qtl2 handles multi-parent populations, such as DO, HS rat and the collaborative cross (CC). It also comes with an LMM implementation. Here we describe using and embedding R/qtl2 in GN2.
R/qtl2 is packaged in guix and can be run in a shell with
guix shell -C r r-qtl2 R library(qtl2)
R/qtl2 also comes with many tests. When starting up with development tools in the R/qtl2 checked out git repo
cd qtl2 guix shell -C -D r r-qtl2 r-devtools make coreutils gcc-toolchain make test Warning: Your system is mis-configured: '/var/db/timezone/localtime' is not a symlink i Testing qtl2 Error in dyn.load(dll_copy_file) : unable to load shared object '/tmp/RtmpWaf4td/pkgload31850824d/qtl2.so': /gnu/store/hs6jjk97kzafl3qn4wkdc8l73bfqqmqh-gfortran-11.4.0-lib/lib/libstdc++.so.6: version `GLIBCXX_3.4.32' not found (required by /tmp/RtmpWaf4td/pkgload31850824d/qtl2.so) Calls: <Anonymous> ... <Anonymous> -> load_dll -> library.dynam2 -> dyn.load Execution halted make: *** [Makefile:9: test] Error 1
not sure what the problem is yet.