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Central Proteomics Facilities Pipeline

A data analysis pipeline for shotgun mass-spectrometry proteomics.

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CPFP provides a pipeline for the analysis of MS/MS proteomic data, targeted at the needs of central proteomics facilities.

== Project Status - 2014/08/14 ==

Due to the departure of the main developer from UTSW at the end of August 2014, major development of CPFP is unlikely in the immediate future. The software remains in use at UTSW and Oxford, where bug fixes and minor features continue to be implemented.

Potential users of CPFP are advised to consider the availability of local expertise and computing support before selecting CPFP as an analysis platform.

Please view the project website at cpfp.sf.net for full details and access to a demonstration server.

Please use the mailing list for any queries:

Central Proteomics Facilities Pipeline Web Site



  • Web based proteomics pipeline targetted at needs of central proteomics facilities
  • MS/MS Search with Mascot, X!Tandem, OMSSA in a single step
  • Peptide and Protein validation using PeptideProphet & ProteinProphet
  • Supports iTRAQ, SILAC, and SINQ Spectral Index label-free quantitation


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