Specific functions are maintained in the R package polymorphology https://github.com/greymonroe/polymorphology
Our aim is enable researchers to make use of data and methods created over the course of our project on mutation bias in Arabidopsis thaliana. We are providing a series of vignettes in the code directory that correspond to results of the paper and highlight the structure of the underlying data.
Please direct questions and comments to the issues page or greymonroe@gmail.com