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Abstract Details

Activity Number: 351
Type: Contributed
Date/Time: Tuesday, July 31, 2012 : 10:30 AM to 12:20 PM
Sponsor: WNAR
Abstract - #306361
Title: Ggbio: An R Implementation for Extending the Grammar of Graphics for Genomic Data
Author(s): Tengfei Yin*+ and Dianne H Cook and Michael Lawrence
Companies: Iowa State University and Iowa State University and Genentech
Address: 209 South Oak Ave, unit 123, Ames, IA, 50010,
Keywords: grammar of graphics ; genomic data visualization ; next-generation sequencing ; statistical cues
Abstract:

Ggbio is a R package which introduces new methodology to visualize and explore high-throughput genomic data, such as second generation sequencing data, in the context of genomic annotations. The methods leverage the statistical functionality available in R, build on the grammar of graphics (as implemented by ggplot2) and the data handling capabilities of the Bioconductor project. The plots provide some specialized graphics including detailed views of genomic regions, edge-linked interval to data views, summary views of sequence alignments and splicing patterns, as well as genome-wide overviews with stacked, circular and grand linear layouts. Statistical summaries displayed in the overview guide the user to the interesting regions for closer inspection. This package provides a high-level generic plot function to generate graphics with intelligent defaults, based on the flavor of the data.


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