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Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them

Bioconductor version: 3.0

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. Pages

Maintainer: H. Pages <hpages at>

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PDF R Script Splicing graphs and RNA-seq data
PDF   Reference Manual


biocViews Annotation, DataRepresentation, GeneExpression, Genetics, RNASeq, Sequencing, Software, Visualization
Version 1.6.0
In Bioconductor since BioC 2.12 (R-3.0)
License Artistic-2.0
Depends BiocGenerics, S4Vectors(>= 0.1.0), IRanges(>= 1.99.21), GenomicRanges(>= 1.17.22), GenomicFeatures(>= 1.17.13), GenomicAlignments(>= 1.1.22), Rgraphviz(>= 2.3.7)
Imports methods, utils, igraph, BiocGenerics, IRanges, GenomicRanges, GenomicFeatures, GenomicAlignments, graph, Rgraphviz
Suggests igraph, Gviz, Rsamtools, TxDb.Hsapiens.UCSC.hg19.knownGene, RNAseqData.HNRNPC.bam.chr14, RUnit
Depends On Me
Imports Me
Suggests Me
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Package Source SplicingGraphs_1.6.0.tar.gz
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Mac OS X 10.6 (Snow Leopard) SplicingGraphs_1.6.0.tgz
Mac OS X 10.9 (Mavericks) SplicingGraphs_1.6.0.tgz
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