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Group: EBI PRIDE Tools

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1. JMzReader Core Library17 usages

uk.ac.ebi.pride.tools » jmzreaderApache

Interfaces for the peak list parsers developed by the PRIDE team.
Last Release on Sep 22, 2015

2. BufferedRandomAccessFile8 usages

uk.ac.ebi.pride.tools » brafApache

This is an optimized version of the RandomAccessFile class as described by Nick Zhang on JavaWorld.com. The article can be found at http://www.javaworld.com/javaworld/javatips/jw-javatip26.html
Last Release on Sep 22, 2015

3. MGF Parser7 usages

uk.ac.ebi.pride.tools » mgf-parserApache

A parser library for Matrix Science's mgf file format.
Last Release on Jul 3, 2016

4. JMzParser Core Library7 usages

uk.ac.ebi.pride.tools » jmzparserApache

Interfaces for the peak list parsers developed by the PRIDE team.
Last Release on Oct 4, 2011
A tool to validate a XMl file against a provided XML schema (XSD) file.
Last Release on Mar 26, 2012

6. Mzxml Parser6 usages

uk.ac.ebi.pride.tools » mzxml-parserApache

A read-only parser library to parse mzXML files. This library was build based on mzXML version 3.2 but should work for any mzXML file version >= 2.0.
Last Release on Sep 22, 2015
Package to clean up submitted accessions into something that makes sense
Last Release on May 23, 2014

8. DTA Parser4 usages

uk.ac.ebi.pride.tools » dta-parserApache

A parser library for dta peak list files. This library supports two options: 1.) A directory containing a single dta file for every spectrum and 2.) a single file containing multiple concatenated dta files (must be sperated by an empty line).
Last Release on Sep 22, 2015

9. MS2 Parser4 usages

uk.ac.ebi.pride.tools » ms2-parserApache

A parser library for the .ms2 file format.
Last Release on Sep 22, 2015


10. Mzdata Parser4 usages

uk.ac.ebi.pride.tools » mzdata-parserApache

A read-only library to parse mzData files. This library implements the PeakListParser interface.
Last Release on Sep 22, 2015

11. Buffered Line Reader4 usages

uk.ac.ebi.pride.tools » buffered-line-readerApache

An efficient class to read files line-by-line. Compared to using RandomAccessFile's readLine function this class is 10 fold faster.
Last Release on Oct 6, 2011

12. Pkl Parser4 usages

uk.ac.ebi.pride.tools » pkl-parserApache

A parser library for the pkl file format.
Last Release on Sep 22, 2015
Group EBI PRIDE Tools Converter

14. MzML Wrapper3 usages

uk.ac.ebi.pride.tools » mzml-wrapperApache

A wrapper class around the jmzml parser library implementing the PeakListParser interface.
Last Release on Jul 17, 2012

15. APL Peak List File Reader2 usages

uk.ac.ebi.pride.tools » apl-parserApache

This is apl peak list file reader
Last Release on Sep 22, 2015
Protein Details Fetcher
Last Release on Dec 4, 2015

17. PRIDE Wrapper1 usages

uk.ac.ebi.pride.tools » pride-wrapperApache

PRIDE Wrapper
Last Release on Dec 9, 2014

18. PRIDE ID Fetcher1 usages

uk.ac.ebi.pride.tools » pride-id-fetcher

Used to fetch ids for new objects in the PRIDE database.
Last Release on Jan 31, 2013

19. PICR Client

uk.ac.ebi.pride.tools » picr-client

Java 6 SOAP Client for PICR service
Last Release on Jun 27, 2011

20. PRIDE XML File Dump

uk.ac.ebi.pride.tools » pride-xmldump

This produces the PRIDE XML file dumps for experiments in the PRIDE database.
Last Release on Mar 1, 2012