tcgsaseq: Time-course gene set analysis for RNA-seq data
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README.md

tcgsaseq

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Overview

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

Installation

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