Package: SplicingGraphs
Title: Create, manipulate, visualize splicing graphs, and assign
        RNA-seq reads to them
Description: 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.
biocViews: Genetics, Annotation, DataRepresentation, Visualization,
        Sequencing, RNASeq, GeneExpression, AlternativeSplicing,
        Transcription, ImmunoOncology
URL: https://bioconductor.org/packages/SplicingGraphs
BugReports: https://github.com/Bioconductor/SplicingGraphs/issues
Version: 1.50.1
License: Artistic-2.0
Encoding: UTF-8
Author: D. Bindreither, M. Carlson, M. Morgan, H. Pagès
Maintainer: H. Pagès <hpages.on.github@gmail.com>
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
Collate: utils.R igraph-utils.R SplicingGraphs-class.R
        plotTranscripts-methods.R sgedgesByGene-methods.R
        txpath-methods.R sgedges-methods.R sgraph-methods.R
        rsgedgesByGene-methods.R bubbles-methods.R assignReads.R
        countReads-methods.R toy_data.R zzz.R
Config/pak/sysreqs: libglpk-dev make libbz2-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-11-02 17:53:37 UTC
RemoteUrl: https://github.com/bioc/SplicingGraphs
RemoteRef: RELEASE_3_22
RemoteSha: 02123b29fa4af336ee4240c586cbe0dcf0653acd
NeedsCompilation: no
Packaged: 2026-02-09 09:43:09 UTC; root
Built: R 4.5.2; ; 2026-02-09 09:45:45 UTC; windows
