SplicingGraphs
This is the development version of SplicingGraphs; for the stable release version, see SplicingGraphs.
All Bioconductor versions of SplicingGraphs
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Bioconductor version: 3.24 · Package version: 1.53.0
This package allows the user to create, manipulate, and visualize splicing graphs and their bubbles based on a gene model for a given organism. Additionally it allows the user to assign RNA-seq reads to the edges of a set of splicing graphs, and to summarize them in different ways.
Author: D. Bindreither, M. Carlson, M. Morgan, H. Pagès
Maintainer: H. Pagès <hpages.on.github at gmail.com>
Citation
From within R, enter citation("SplicingGraphs"):
D. Bindreither, M. Carlson, M. Morgan, H. Pagès. SplicingGraphs: Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them. doi:10.18129/B9.bioc.SplicingGraphs, R package version 1.53.0, https://bioconductor.org/packages/SplicingGraphs.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("SplicingGraphs")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.53.0 |
| License | Artistic-2.0 |
| URL | https://bioconductor.org/packages/SplicingGraphs |
| Bug Reports | https://github.com/Bioconductor/SplicingGraphs/issues |
| Last updated | 2026-09-16 |
| In Bioconductor since | BioC 2.12 (R-3.0) (13 years) |
| Downloads rank | 484 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | AlternativeSplicing, Annotation, DataRepresentation, GeneExpression, Genetics, ImmunoOncology, RNASeq, Sequencing, Software, Transcription, Visualization |
| Package Short Url | https://bioconductor.org/packages/SplicingGraphs/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SplicingGraphs")| Splicing graphs and RNA-seq data | R Script | |
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | SplicingGraphs_1.53.0.tar.gz |
| Windows binary (x86_64) | SplicingGraphs_1.53.0.zip |
| macOS binary (arm64) | SplicingGraphs_1.53.0.tgz |
| macOS binary (x86_64) | SplicingGraphs_1.53.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/SplicingGraphs |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SplicingGraphs |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.5.0), GenomicFeatures (>= 1.17.13), GenomicAlignments (>= 1.1.22), Rgraphviz (>= 2.3.7)
Imports: methods, utils, graphics, igraph, BiocGenerics, S4Vectors (>= 0.17.5), BiocParallel, IRanges (>= 2.21.2), Seqinfo, GenomicRanges (>= 1.23.21), Rsamtools, graph
Suggests: igraph, Gviz, txdbmaker, TxDb.Hsapiens.UCSC.hg19.refGene, RNAseqData.HNRNPC.bam.chr14, RUnit