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Enhancement - full support for mzidLib processing of identifications #24

Open GoogleCodeExporter opened 9 years ago

GoogleCodeExporter commented 9 years ago 
The mzidLibrary now contains a useful set of routines (and a basic GUI), which 
we need to determine how best to incorporate into Proteosuite.

As part of the MSGF+ pipeline, if protein inference is selected we use the FDR, 
threshold and proteogrouper routines, which mean that these identification 
files would then be ready for onwards quantification analysis. If protein 
inference is not selected, passThreshold=true will be set to true (by default) 
for all identifications, then these will be passed on to XTracker.

If we fully incorporate the mzidLibrary, we could offer to load results direct 
from X!Tandem and OMSSA (or other search engines), then prepare them for 
quantification analysis.

Need to discuss how best to code this up, so it can be improved as mzidLib 
develops.

Original issue reported on code.google.com by andrewro...@googlemail.com on 21 Nov 2013 at 12:58