tidygenclust provides functions and methods to run genetic clustering
in R, using the commonly used ADMIXTURE program as we as the python
package fastmixture. It also help to align and compare multiple runs
of the same or different K using the functionalities of the python
package clumppling. tidygenclust builds on tidypopgen, enhancing
the grammar of population genetics with a focus on genetic clustering.
Currently installation is limited to Linux and OSX, but NOT Windows (you
can use the WSL). You can install the development version of
tidygenclust from GitHub with:
# install.packages("pak")
pak::pak("EvolEcolGroup/tidygenclust")Note for MacOS user
We use reticulate to seamlessly integrate the required python packages
and dependencies
into R without additional installation steps for the user.
However, for this to work correctly for MacOS users, you need
llvm installed via brew in the first place. In bash, you will need:\
brew install llvm libompOn overview of the functionality of tidygenclust and its integration
with tidypopgen is provided in the "Get Started"" vignette. This also
includes a detailed description of how to align multiple runs of
clustering and compare them.