ProDBWiki/DeveloperDocumentation/MzDataImportSpecification: Difference between revisions
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An mzData format importer for ProDB needs to consider two different mapping problems. The first one is a relatively simple one: XML elements/attributes need to be mapped onto ProDB object attributes. The second kind of mapping is a little bit more difficult: we need to map ontology-controlled cvParam elements onto ProDB object attributes. An example: | An mzData format importer for ProDB needs to consider two different mapping problems. The first one is a relatively simple one: XML elements/attributes need to be mapped onto ProDB object attributes. The second kind of mapping is a little bit more difficult: we need to map ontology-controlled cvParam elements onto ProDB object attributes. An example: | ||
ProDB models the kind of ionisation directly as classes, for example DB::Ionisation::Electrospray or DB::Ionisation::Maldi. In mzData, however, this information is stored in a list of cvParam elements in mzData/description/instrument/source, for example | |||
Revision as of 13:22, 16 February 2005
= mzData Import Specification =
== Introduction ==
mzData is an XML exchange format for mass-spectrometry data and is created and maintained by the Proteomics Standards Initiative. The format is defined by an XML schema and an ontology. The ontology defines legal values for so-called cvParam elements to provide flexibility concerning new mass-spectrometers and their componentry.
An mzData format importer for ProDB needs to consider two different mapping problems. The first one is a relatively simple one: XML elements/attributes need to be mapped onto ProDB object attributes. The second kind of mapping is a little bit more difficult: we need to map ontology-controlled cvParam elements onto ProDB object attributes. An example:
ProDB models the kind of ionisation directly as classes, for example DB::Ionisation::Electrospray or DB::Ionisation::Maldi. In mzData, however, this information is stored in a list of cvParam elements in mzData/description/instrument/source, for example