DOI: 10.18129/B9.bioc.rnaseqDTU  

This is the development version of rnaseqDTU; for the stable release version, see rnaseqDTU.

RNA-seq workflow for differential transcript usage following Salmon quantification

Bioconductor version: Development (3.18)

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, enter citation("rnaseqDTU")):


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biocViews GeneExpressionWorkflow, ImmunoOncologyWorkflow, Workflow
Version 1.21.1
License Artistic-2.0
Depends R (>= 3.5.0), DRIMSeq, DEXSeq, stageR, DESeq2, edgeR, rafalib, devtools
Suggests knitr, rmarkdown
URL https://github.com/thelovelab/rnaseqDTU/
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Package Short Url https://bioconductor.org/packages/rnaseqDTU/
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