treediff

treediff performs tests to detect differences in structure between families of trees: The method is based on cophenetic distances and aggregated Student’s tests. The package includes a wrapper to deal with Hi-C data (chromatine conformation data based on high-thoughput sequencing). treediff is based on the R package adjclust for constrained hierarchical clustering (with wrappers for Hi-C and SNP data) to the development of which MIAT is also contributing.