Proteome Discoverer mzid file could not be imported
The error message stated that the mzid file contains an unsupported score type. Please advise. Thank you.
Does your Proteome Discoverer workflow include Percolator? Skyline requires probability scores (e.g. q-values from Percolator) in results files when building spectral libraries. You may be able to build a spectral library from Proteome Discoverer results without q-values by setting the cut-off score to 0, but this is not recommended.
Nick, I am trying to use a DDA raw file from the analysis of the PRTC standard. Percolator will not work because there are too few peptides. If I set the Skyline cut-off score to 0, I obtain the same error message of an unsupported score type. Mark
Nick, I used the PD msf file instead of the mzid file, and the import worked correctly (without using Percolator). Thank you. Mark