This is the development version of rnaseqDTU; for the stable release version, see rnaseqDTU.
RNA-seq workflow for differential transcript usage following Salmon quantificationBioconductor version: Development (3.22)
RNA-seq workflow for differential transcript usage (DTU) following Salmon quantification. This workflow uses Bioconductor packages tximport, DRIMSeq, and DEXSeq to perform a DTU analysis on simulated data. It also shows how to use stageR to perform two-stage testing of DTU, a statistical framework to screen at the gene level and then confirm which transcripts within the significant genes show evidence of DTU.
Author: Michael Love [aut, cre], Charlotte Soneson [aut], Rob Patro [aut]
Maintainer: Michael Love <michaelisaiahlove at gmail.com>
Citation (from within R, entercitation("rnaseqDTU")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("rnaseqDTU")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("rnaseqDTU")Follow Installation instructions to use this package in your R session.
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