I'm using TPP 4.2.0 to analyze cleavable ICAT data from an LCQ. When
all replicates are done, I have 120 seperate .pep.xml files to combine
and analyze. With earlier versions of TPP (i.e. 3.4) I could analyze
them all at once with Xinteract, but with 4.2 the operation simply
aborts and fails with no error message. I can analyze the files 40 at
a time and then combine the interact.pep files in protein prophet, but
I'm curious if and why there's a limitation on the number of input
files for Xinteract.
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