Journal Article

mspire: mass spectrometry proteomics in Ruby

John T. Prince and Edward M. Marcotte

in Bioinformatics

Volume 24, issue 23, pages 2796-2797
Published in print December 2008 | ISSN: 1367-4803
Published online October 2008 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btn513

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Summary: Mass spectrometry-based proteomics stands to gain from additional analysis of its data, but its large, complex datasets make demands on speed and memory usage requiring special consideration from scripting languages. The software library ‘mspire’—developed in the Ruby programming language—offers quick and memory-efficient readers for standard xml proteomics formats, converters for intermediate file types in typical proteomics spectral-identification work flows (including the Bioworks .srf format), and modules for the calculation of peptide false identification rates.

Availability: Freely available at http://mspire.rubyforge.org. Additional data models, usage information, and methods available at http://bioinformatics.icmb.utexas.edu/mspire

Contact: marcotte@icmb.utexas.edu

Journal Article.  1234 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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