ballgown
Flexible, isoform-level differential expression analysis
Bioconductor version: 3.23 · Package version: 2.43.0
Tools for statistical analysis of assembled transcriptomes, including flexible differential expression analysis, visualization of transcript structures, and matching of assembled transcripts to annotation.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ballgown")Details
| Maintainer | Jack Fu <jmfu@jhsph.edu> |
| Author | Jack Fu [aut], Alyssa C. Frazee [aut, cre], Leonardo Collado-Torres [aut], Andrew E. Jaffe [aut], Jeffrey T. Leek [aut, ths] |
| License | Artistic-2.0 |
| Bug Reports | https://github.com/alyssafrazee/ballgown/issues |
| Status | Deprecated |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, ImmunoOncology, Preprocessing, RNASeq, Software, StatisticalMethod |
| Package Short Url | https://bioconductor.org/packages/ballgown/ |
Citation
From within R, enter citation("ballgown"):
Jack Fu, Alyssa C. Frazee, Leonardo Collado-Torres, Andrew E. Jaffe, Jeffrey T. Leek. ballgown: Flexible, isoform-level differential expression analysis. doi:10.18129/B9.bioc.ballgown, R package version 2.43.0, https://bioconductor.org/packages/ballgown.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | ballgown_2.43.0.tar.gz |
Dependencies
Depends: R (>= 3.5.0), methods
Imports: GenomicRanges (>= 1.17.25), IRanges (>= 1.99.22), S4Vectors (>= 0.9.39), RColorBrewer, splines, sva, limma, rtracklayer (>= 1.29.25), Biobase (>= 2.25.0), Seqinfo