RNA-Seq Analysis for Repeated-Measures Data

A differential expression analysis method for RNA-seq data from repeated-measures design using general linear model framework and parametric bootstrap inference. The method accounts for the dependence of gene expression levels due to the repeated-measures through continuous autoregressive correlation structure. The method is described in Chapter 4 of Nguyen (2018) < https://lib.dr.iastate.edu/cgi/viewcontent.cgi?article=7433&context=etd>.


Reference manual

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0.1.0 by Yet Nguyen, a year ago

Browse source code at https://github.com/cran/rmRNAseq

Authors: Yet Nguyen [aut, cre] , Dan Nettleton [aut] , Charity Gordon Law Smyth [ctb] (The authors of limma::voom , which was modified slightly leading to my_voom) , Agata Michna [ctb] (The author of splineTimeR::splineDiffExprs , which was modified slightly leading to my_splineDiffExprs)

Documentation:   PDF Manual  

GPL (>= 2) license

Imports AUC, Biobase, DESeq2, edgeR, graphics, limma, MASS, Matrix, methods, nlme, parallel, reshape, rlang, splines, splineTimeR, statmod, stats

Suggests knitr, rmarkdown, testthat

See at CRAN