Hi,
In the latest TPP versions ProphetModels.pl now calculates uncertainty
values for the FDRs (both prophet and decoy calculated), with the
decoy FDR uncertainties displayed as error bars in the plots. I note
that the uncertainty values are calculated with the formula:
$PP_decoy_uncert =
OK, a bit more code-spelunking shows that for whatever reason, the code for
populating the peptideprophet_summary element's input_file values is quite
explicit about using basename. I'd say just go with the interact_summary
element to get at the full filename and be happy...
Brian
Thanks Brian!
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iTRAQ is quantified based on ms/ms fragment peaks; use the Libra tool
for that labeling method. ASAPRatio and XPRESS are not meant to work on
iTRAQ data.
As for O18 labeling, under the presumption that two O18 atoms are
incorporated into the heavy labeled peptides, you want to specify a 4 Da
Hi Dave,
This is the basic standard error calculation that can be applied to a
simple random sample.
-David
On Tue, Jun 9, 2009 at 6:43 AM, dctruddct...@ccmp.ox.ac.uk wrote:
Hi,
In the latest TPP versions ProphetModels.pl now calculates uncertainty
values for the FDRs (both prophet and
