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DESCRIPTION
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README.md

README.md

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README
Jingwen Yang
2019/4/27
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TreeExp

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:

  • pairwise expression distance estimation;
  • relative rate test for transcriptome evolution;
  • the strength of expression conservation estimation;
  • 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.

TreeExp package is under active developing, current developing version 2.0 is available at https://github.com/jingwyang/TreeExp.

A convenient way to install package from github is through devtools package:

install.packages('devtools')
devtools::install_github("jingwyang/TreeExp")

Please refer to Tutorial for startup guide of TreeExp.

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