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Title
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jqcML : an open-source Java API for mass spectrometry quality control data in the qcML format
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Author
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Abstract
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| The awareness that systematic quality control is an essential factor to enable the growth of proteomics into a mature analytical discipline has increased over the past few years. To this aim a controlled vocabulary and document structure have recently been proposed by Walzer et al. to store and disseminate quality control metrics for mass spectrometry-based proteomics experiments, called qcML. To facilitate the adoption of this standardized quality control routine, we introduce jqcML, a Java application programming interface (API) for the qcML data format. Firstly, jqcML provides a complete object model to represent qcML data. Secondly, jqcML provides the ability to read, write and work in a uniform manner with qcML data from different sources, including the XML-based qcML file format and the relational database qcDB. Interaction with the XML-based file format is obtained through the Java Architecture for XML Binding (JAXB), while generic database functionality is obtained by the Java Persistence API (JPA). jqcML is released as open-source software under the permissive Apache 2.0 license and can be downloaded from https://bitbucket.org/proteinspector/jqcml. |
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Language
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English
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Source (journal)
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Journal of proteome research. - -
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Publication
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2014
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ISSN
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1535-3893
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DOI
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10.1021/PR401274Z
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Volume/pages
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13
:7
(2014)
, p. 3484-3487
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ISI
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000338693400032
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Full text (Publisher's DOI)
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