Hello James,
Yes, these values are still hard-coded. If you wish to test alternative
values, you can edit lines 958-959 and recompile:
https://sourceforge.net/p/sashimi/code/HEAD/tree/trunk/trans_proteomic_pipeline/src/Validation/ProteinProphet/ProteinProphet.cpp
MIN_WT = 0.5;
MIN_PROB =
Hi Luis,
Is this option still hardcoded in the most up to date version of
ProteinProphet?
On Tuesday, November 22, 2011 at 5:39:54 PM UTC-8 Luis wrote:
> Hello Xiao,
> You are correct: there is a lower limit in ProteinProphet to disregard
> peptides below a certain probability and assigned
Hello Xiao,
You are correct: there is a lower limit in ProteinProphet to disregard
peptides below a certain probability and assigned weight. These values
(0.2 and 0.5, respectively) are unfortunately hard-coded in the program and
cannot be set by the user; in order to change them you would have
Dear all,
I have a question about the ProteinProphet. From the link of More
Analysis Info in the ProteinProphet results view window, I found the
min peptide probability to be 0.2. Is 0.2 the probability threshold
that ProteinProphet uses to select the peptides? If yes, can I set a
different value
