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Bioinformatics. 2012 Jul 15;28(14):1919-20. doi: 10.1093/bioinformatics/bts277. Epub 2012 May 9.

BEDOPS: high-performance genomic feature operations.

Author information

1
Department of Genome Sciences and Department of Medicine, University of Washington, Seattle, Washington, DC 98195, USA. sjn@u.washington.edu

Abstract

The large and growing number of genome-wide datasets highlights the need for high-performance feature analysis and data comparison methods, in addition to efficient data storage and retrieval techniques. We introduce BEDOPS, a software suite for common genomic analysis tasks which offers improved flexibility, scalability and execution time characteristics over previously published packages. The suite includes a utility to compress large inputs into a lossless format that can provide greater space savings and faster data extractions than alternatives.

AVAILABILITY:

http://code.google.com/p/bedops/ includes binaries, source and documentation.

PMID:
22576172
PMCID:
PMC3389768
DOI:
10.1093/bioinformatics/bts277
[Indexed for MEDLINE]
Free PMC Article

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