tcgsaseq is a package for analyzing RNA-seq data. The 2 main functions of the package are varseq and tcgsa_seq:

• Gene-wise Differential Analysis of RNA-seq data can be performed using the function varseq.
• Gene Set Analysis of RNA-seq data can be performed using the function tcgsa_seq.

The method implemented in this package is detailed in the following article:

Agniel D & Hejblum BP (2017). Variance component score test for time-course gene set analysis of longitudinal RNA-seq data, 2017, Biostatistics, 18(4):589-604. arXiv:1605.02351 DOI: 10.1093/biostatistics/kxx005

The easiest way to get tcgsaseq is to install it from CRAN:

install.packages("tcgsaseq")

Or to get the development version from GitHub:

#install.packages("devtools")
devtools::install_github("denisagniel/tcgsaseq")

-- Denis Agniel and Boris Hejblum