jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions

[Image: see text] We here present jTraML, a Java API for the Proteomics Standards Initiative TraML data standard. The library provides fully functional classes for all elements specified in the TraML XSD document, as well as convenient methods to construct controlled vocabulary-based instances requi...

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Detalles Bibliográficos
Autores principales: Helsens, Kenny, Brusniak, Mi-Youn, Deutsch, Eric, Moritz, Robert L., Martens, Lennart
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2011
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3208355/
https://www.ncbi.nlm.nih.gov/pubmed/21967198
http://dx.doi.org/10.1021/pr200664h
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author Helsens, Kenny
Brusniak, Mi-Youn
Deutsch, Eric
Moritz, Robert L.
Martens, Lennart
author_facet Helsens, Kenny
Brusniak, Mi-Youn
Deutsch, Eric
Moritz, Robert L.
Martens, Lennart
author_sort Helsens, Kenny
collection PubMed
description [Image: see text] We here present jTraML, a Java API for the Proteomics Standards Initiative TraML data standard. The library provides fully functional classes for all elements specified in the TraML XSD document, as well as convenient methods to construct controlled vocabulary-based instances required to define SRM transitions. The use of jTraML is demonstrated via a two-way conversion tool between TraML documents and vendor specific files, facilitating the adoption process of this new community standard. The library is released as open source under the permissive Apache2 license and can be downloaded from http://jtraml.googlecode.com. TraML files can also be converted online at http://iomics.ugent.be/jtraml.
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spelling pubmed-32083552011-11-04 jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions Helsens, Kenny Brusniak, Mi-Youn Deutsch, Eric Moritz, Robert L. Martens, Lennart J Proteome Res [Image: see text] We here present jTraML, a Java API for the Proteomics Standards Initiative TraML data standard. The library provides fully functional classes for all elements specified in the TraML XSD document, as well as convenient methods to construct controlled vocabulary-based instances required to define SRM transitions. The use of jTraML is demonstrated via a two-way conversion tool between TraML documents and vendor specific files, facilitating the adoption process of this new community standard. The library is released as open source under the permissive Apache2 license and can be downloaded from http://jtraml.googlecode.com. TraML files can also be converted online at http://iomics.ugent.be/jtraml. American Chemical Society 2011-10-04 2011-11-04 /pmc/articles/PMC3208355/ /pubmed/21967198 http://dx.doi.org/10.1021/pr200664h Text en Copyright © 2011 American Chemical Society http://pubs.acs.org This is an open-access article distributed under the ACS AuthorChoice Terms & Conditions. Any use of this article, must conform to the terms of that license which are available at http://pubs.acs.org.
spellingShingle Helsens, Kenny
Brusniak, Mi-Youn
Deutsch, Eric
Moritz, Robert L.
Martens, Lennart
jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title_full jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title_fullStr jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title_full_unstemmed jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title_short jTraML: An Open Source Java API for TraML, the PSI Standard for Sharing SRM Transitions
title_sort jtraml: an open source java api for traml, the psi standard for sharing srm transitions
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3208355/
https://www.ncbi.nlm.nih.gov/pubmed/21967198
http://dx.doi.org/10.1021/pr200664h
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