TreeExp is an R package that performs analyses of expression evolution from RNA-seq data, including optimized input formatting, normalization and pair-wise distance evaluation, expression character tree inference and preliminary phylogenetic network analysis.
TreeExp package is under active developing, current developing version 2.0 is available at https://github.com/hr1912/TreeExp.
A convenient way to install package from github is through devtools package:
Users can also download TreeExp package and install locally through:
install.packages("filePath/TreeExp.2.0.tar.gz", repos = NUll, type = "source")
Please refer to vignettes for startup guide of TreeExp.