Greetings all--

The enhancements in new versions are great!  But where can I find more
information on the ProteinProphet confidence calculation--what goes
into it and how to interpret it? The release notes indicate it is
based on a States et al. -like algorithm--is there a reference for
this, or perhaps States's initials and approximate date of
publication?

And, in  PeptideProphet results, what is the difference between
peptides and stripped peptides?

Thanks

Mary

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