Software for Computing and Annotating Genomic Ranges

DSpace/Manakin Repository

Software for Computing and Annotating Genomic Ranges

Citable link to this page

 

 
Title: Software for Computing and Annotating Genomic Ranges
Author: Lawrence, Michael; Huber, Wolfgang; Pagès, Hervé; Aboyoun, Patrick; Carlson, Marc; Gentleman, Robert; Morgan, Martin T.; Carey, Vincent J.

Note: Order does not necessarily reflect citation order of authors.

Citation: Lawrence, Michael, Wolfgang Huber, Hervé Pagès, Patrick Aboyoun, Marc Carlson, Robert Gentleman, Martin T. Morgan, and Vincent J. Carey. 2013. “Software for Computing and Annotating Genomic Ranges.” PLoS Computational Biology 9 (8): e1003118. doi:10.1371/journal.pcbi.1003118. http://dx.doi.org/10.1371/journal.pcbi.1003118.
Full Text & Related Files:
Abstract: We describe Bioconductor infrastructure for representing and computing on annotated genomic ranges and integrating genomic data with the statistical computing features of R and its extensions. At the core of the infrastructure are three packages: IRanges, GenomicRanges, and GenomicFeatures. These packages provide scalable data structures for representing annotated ranges on the genome, with special support for transcript structures, read alignments and coverage vectors. Computational facilities include efficient algorithms for overlap and nearest neighbor detection, coverage calculation and other range operations. This infrastructure directly supports more than 80 other Bioconductor packages, including those for sequence analysis, differential expression analysis and visualization.
Published Version: doi:10.1371/journal.pcbi.1003118
Other Sources: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3738458/pdf/
Terms of Use: This article is made available under the terms and conditions applicable to Other Posted Material, as set forth at http://nrs.harvard.edu/urn-3:HUL.InstRepos:dash.current.terms-of-use#LAA
Citable link to this page: http://nrs.harvard.edu/urn-3:HUL.InstRepos:11855726
Downloads of this work:

Show full Dublin Core record

This item appears in the following Collection(s)

 
 

Search DASH


Advanced Search
 
 

Submitters