jingwyang/TreeExp: the R package for analyzing expression evolution based on RNA-seq data

TreeExp is an R package developed to provides useful phylogenetic tools applicable to RNA-seq data. The package can be applied to comparative expression evolution analysis, which includes but not liminited to: (i) pairwise expression distance estimation; (ii) relative rate test for transcriptome evolution; (iii) the strength of expression conservation estimation; (iv) ancestral transcriptome inference. Statistical methods implemented in the package was based on Ornstein-Uhlenbeck (OU) model of transcriptome evolution which claims that expression changes are constrained by stabilizing selection.

install.packages("remotes")
remotes::install_github("jingwyang/TreeExp")