Hi:
Is there a way to use the -D option with two or more fasta databases short
of concatenating them together?
We often do searches in Mascot with multiple databases ie 1::database.fasta
2::someotherdatabase.fast.
Thanks in advance.
Mark Shifman
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Hi Jason,
Thank you for your answer. I just want to assure myself - is it possible to
do this like selecting two or more files (pep.xml after a tandem search) in
TPP with the selection of one interact.pep.xml output file? Since I use the
Windows TPP this would be the best way if it is ok.
I
Hi all,
I've been reading a lot lately about a variety of label-free quantitation
techniques. Unfortunately our data is poorly suited to MS1 peak
extraction/integration (a la maxquant, skyline MS1 filtering etc.) and so
we're very keen to implement some form of spectral counting (MS2 level)
Hi,
I have recently started using peptide/proteinprophet. I noticed that in my
data, there are several protein groups for which the number of unique
peptidees is more than the number of total peptides (mostly the total
number of peptides is 0). Is this data reliable? How to explain this.
Hi all,
I am told that the most recent version of Peptide/ProteinProphet is
compatible with MS-GF+ search output. Is this true? If so, where can I
obtain it? I've already tried using TPP version 4.6.2 and xinteract
fails upon calling PeptideProphet with the message that MS-GF+ is not
