DOI: 10.18129/B9.bioc.rnaseqDTU  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see rnaseqDTU.

RNA-seq workflow for differential transcript usage following Salmon quantification

Bioconductor version: 3.17

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>

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HTML R Script RNA-seq workflow for differential transcript usage following Salmon quantification


biocViews GeneExpressionWorkflow, ImmunoOncologyWorkflow, Workflow
Version 1.20.0
License Artistic-2.0
Depends R (>= 3.5.0), DRIMSeq, DEXSeq, stageR, DESeq2, edgeR, rafalib, devtools
Suggests knitr, rmarkdown
URL https://github.com/mikelove/rnaseqDTU/
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Source Package rnaseqDTU_1.20.0.tar.gz
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