Hi David:
Thank you, David, for interesting conversation. The world you just
described does not exits, fortunately I would say, and it is probably
a time to think about real world which is outside of all-round but
practically useless mathematical models.
Sergey
On Feb 18, 12:55 am, David
For two independent experimental data probability of particular scan
to match particular peptide should not depend on data in second
independent experiment that is why they are independent experiments.
With PeptideProphet when you combine two data sets in interact.xml and
process them together
I don't agree that any hidden links are introduced, rather some
incorrect assumptions are exposed. When datasets are analyzed
together this is very explicit. When you are expecting that these
datasets should be independent but you are finding that you get
different results when you are
