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