dearseq-package: dearseq: Differential Expression Analysis for RNA-seq data...

In dearseq: Differential Expression Analysis for RNA-seq data through a robust variance component test

Description

Differential Expression Analysis RNA-seq data with variance component score test accounting for data heteroscedasticity through precision weights. Perform both gene-wise and gene set analyses, and can deal with repeated or longitudinal data. Methods are detailed in: Agniel D & Hejblum BP (2017) Variance component score test for time-course gene set analysis of longitudinal RNA-seq data, Biostatistics, 18(4):589-604. and Gauthier M, Agniel D, Thiébaut R & Hejblum BP (2019). dearseq: a variance component score test for RNA-Seq differential analysis that effectively controls the false discovery rate, *bioRxiv* 635714.

Details

Analysis of RNA-seq data with variance component score test accounting for data heteroscedasticity through precision weights. Performs gene-wise analysis as well as gene set analysis, including for complex experimental designs such as longitudinal data.

Package:	dearseq
Type:	Package
Version:	1.0.0
Date:	2020-04-04
License:	GPL-2

The two main functions of the dearseq package are dear_seq and dgsa_seq.

Author(s)

Maintainer: Boris P. Hejblum [e-mail]

Authors:

• Denis Agniel [e-mail]

• Marine Gauthier [e-mail]

References

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

Gauthier M, Agniel D, Thiébaut R & Hejblum BP (2019). dearseq: a variance component score test for RNA-Seq differential analysis that effectively controls the false discovery rate, 635714. DOI: 10.1101/635714v1

See Also

Useful links:

• Report bugs at https://github.com/borishejblum/dearseq/issues

dearseq documentation built on Nov. 8, 2020, 5:49 p.m.