About Java MIAPE API

Updates and new features: here (last update:5-Sept-2013)

Getting Java MIAPE API: here

Java MIAPE API documentation: here

Link to Javadoc:  here

About MIAPE


MIAPE Extractor Tool

Link to download  latest version

Source code now available at google code: [ source code]

Tutorial (updated to v3.7.1 - 5-Sept-2013): [ pdf]

The MIAPE extractor tool is a standalone tool that allows:

  • automatically creating MIAPE compliant reports from proteomics standard data files (PRIDE XML, mzML, mzIdentML) and others (XTandem output xml), storing these reports in the ProteoRed MIAPE repository
  • obtaining a huge number of graphical representations of qualitative information from protein and peptide identification data, comming from MIAPE MSI documents,
  • exporting your MIAPE-compliant reports to fully MIAPE-compliant PRIDE XML files
  • preparing your data for a complete ProteomeXchange submission

ProteoRed MIAPE Extractor data workflow

See latest changes and new features: here (last update:25-Jun-2013)

Batch MIAPE extraction Tutorial: [ pdf]

PDF presentation (AOHUPO - JP Albar - May 2012):  pdf

Plenary lecture on 5th Congress of the Spanish Proteomics Society (Salvador Martínez-Bartolomé - Feb 2013):  pdf


MIAPE API Webservices

This webservice provides the basic functionality to interact remotely with the MIAPE repository.
It allows retrieving, storing and deleting MIAPE documents and projects.
Authentication of the user is always performed previous to any action, so privacy is preserved in the API.

Link to WSDL file:  MiapeAPIWebservice.wsdl

List of functions provided by the webservice here.

Webservice documentation and examples here.


MIAPE Extractor Webservices

This webservice provides a set of functions related to the extraction of MIAPE information from standard XML files and related to the creation of standard XML files from MIAPE documents in the MIAPE repository.
At the moment the standard XML files that supports are:  mzML,  mzIdentML,  PRIDE XML and  XTandem output XML.
Authentication of the user is always performed previous to any action, so privacy is preserved in the API.

Link to WSDL file:  MiapeExtractor.wsdl

List of functions provided by the service here.

Webservice documentation and examples here.


Team

The Bionformatics group members are:

  • Salvador Martínez-Bartolomé (smartinez at proteored.org) [Publications]
  • Miguel Angel López García (malgarcia at proteored.org) [Publications]
  • Alberto Medina Auñón (jamedina at proteord.org) [Publications]


Group Coordinator:

  • J. Pablo Albar Ramirez (jpalbar at proteord.org) [Publications]


Group publications: here

Attachments