M. Morgan

M. Morgan

4 packages on Bioconductor

Biobase

bioconductor
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Functions that are needed by many other packages or which replace R functions.

BiocCaseStudies

bioconductor
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Software and data to support the case studies.

GenomicFeatures

bioconductor
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A set of tools and methods for making and manipulating transcript centric annotations. With these tools the user can easily download the genomic locations of the transcripts, exons and cds of a given organism, from either the UCSC Genome Browser or a BioMart database (more sources will be supported in the future). This information is then stored in a local database that keeps track of the relationship between transcripts, exons, cds and genes. Flexible methods are provided for extracting the desired features in a convenient format.

SplicingGraphs

bioconductor
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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.