Software:RAMP
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| *muxQuant (JPR, link to follow) | *muxQuant (JPR, link to follow) | ||
Revision as of 20:05, 31 January 2008
Contents |
RAMP
RAMP: Random Access Minimal Parser
C/C++ parser for mzXML (and mzData) files. The RAMP parser code is contained in the TPP source tree. RAMP is heavily used in the TPP; this allows programs to seamlessly adapt to revisions to the mzXML format, as well as handle other formats such as mzData. RAMP itself is C-language code; "cRAMP" is a C++ wrapper.
RAMP in the TPP
- MzXML2Search – RAMP
- ASAPRatio – RAMP
- Xpress – RAMP
- Libra – RAMP
- SpectraST – cRAMP
- pep3D -RAMP
- MS/MS spectrum viewer - RAMP
External Projects
- muxQuant (JPR, link to follow)
Getting the software
- stable: You can also look in the latest stable/official source release, under /trans_proteomic_pipeline/src/Parsers/ramp/
- Latest (bleeding edge) is in the SVN trunk: http://sashimi.svn.sourceforge.net/viewvc/sashimi/trunk/trans_proteomic_pipeline/src/Parsers/ramp/
History and Design Decisions
RAMP was developed at time when full XML parsing libraries (such as xerces) were heavyweight and slow, and not suited for the fast, random-access parsing of large spectral files in proteomics applications. As such, the code is string-based ASCII processing rather than true XML parsing. This unfortunately also makes RAMP fairly dependent on the whitespace in mzXML, and occasionally the order of attributes within elements.
