diffUTR
diffUTR: Streamlining differential exon and 3' UTR usage
Bioconductor version: 3.23 · Package version: 1.20.0
The diffUTR package provides a uniform interface and plotting functions for limma/edgeR/DEXSeq -powered differential bin/exon usage. It includes in addition an improved version of the limma::diffSplice method. Most importantly, diffUTR further extends the application of these frameworks to differential UTR usage analysis using poly-A site databases.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("diffUTR")Details
| Maintainer | Pierre-Luc Germain <pierre-luc.germain@hest.ethz.ch> |
| Author | Pierre-Luc Germain [cre, aut] (ORCID: <https://orcid.org/0000-0003-3418-4218>), Stefan Gerber [aut] |
| License | GPL-3 |
| Bug Reports | https://github.com/ETHZ-INS/diffUTR |
| Downloads rank | 280 |
| Source branch | RELEASE_3_23 |
| biocViews | GeneExpression, Software |
Documentation
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Dependencies
Depends: R (>= 4.0)
Imports: S4Vectors, SummarizedExperiment, limma, edgeR, DEXSeq, GenomicRanges, Rsubread, ggplot2, rtracklayer, ComplexHeatmap, ggrepel, stringi, methods, stats, GenomeInfoDb, dplyr, matrixStats, IRanges, ensembldb, viridisLite