genomation: a toolkit to summarize, annotate and visualize genomic intervals

Abstract

Abstract Summary: Biological insights can be obtained through computational integration of genomics data sets consisting of diverse types of information. The integration is often hampered by a large variety of existing file formats, often containing similar information, and the necessity to use complicated tools to achieve the desired results. We have built an R package, genomation, to expedite the extraction of biological information from high throughput data. The package works with a variety of genomic interval file types and enables easy summarization and annotation of high throughput data sets with given genomic annotations. Availability and implementation: The software is currently distributed under MIT artistic license and freely available at http://bioinformatics.mdc-berlin.de/genomation, and through the Bioconductor framework. Contact: dirk.schubeler@fmi.ch, chm2042@med.cornell.edu, altuna.akalin@fmi.ch, or aakalin@gmail.com

Keywords

Affiliated Institutions

• University of Basel CH
• Cornell University US
• University of Oslo
• Friedrich Miescher Institute CH
• University of Zagreb HR

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