diffUTR
diffUTR: Streamlining differential exon and 3' UTR usage
Bioconductor version: 3.24 · Package version: 1.21.0
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 | 462 |
| Source branch | devel |
| biocViews | GeneExpression, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | diffUTR_1.21.0.tar.gz |
| Windows binary (x86_64) | diffUTR_1.21.0.zip |
| macOS binary (arm64) | diffUTR_1.21.0.tgz |
| macOS binary (x86_64) | diffUTR_1.21.0.tgz |
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