Support for Scaffold v3.0 and v4.0
About this plug-in
Supports the use of Scaffold from Proteome Software. Scaffold allows you to use proven statistical algorithms to calculate the probability that proteins are actually present in your biological samples and so reduce the chance of including incorrect identifications in your results.
To be able to load Scaffold search results, the search should be performed in Mascot using .mgf files created by Progenesis QI for proteomics. The search results can then be processed by Scaffold and exported as a Excel format Spectrum Report to be read back into Progenesis QI for proteomics.