Dear All (especially David),
I am trying to use the ANN retention time predictor. The training runs OK,
but when trying to use it I get this error:
gsl: init_source.c:29: ERROR: vector length n must be positive integer
Default GSL error handler invoked.
This application has requested the
Hi Magnus,
Can you forward me the files you have and the commands you are using and I
will debug?
Thanks,
-David
On Thu, Mar 28, 2013 at 10:47 AM, magnus.palmb...@gmail.com
magnus.palmb...@gmail.com wrote:
Dear All (especially David),
I am trying to use the ANN retention time predictor.
OK - I sent the training set and the ANN model by e-mail.
On Thursday, 28 March 2013 18:49:41 UTC+1, David Shteynberg wrote:
Hi Magnus,
Can you forward me the files you have and the commands you are using and I
will debug?
Thanks,
-David
On Thu, Mar 28, 2013 at 10:47 AM,
Thanks for the files you've provided. I was able to find and fix one error
in the code. TPP revision 6171 from trunk should contain this fix. Also I
found an error in your commands. When you train a a Neural Net with RTCalc
you have to use the ANN= option if you want to then apply the trained
Hi all,
I have a question about FDR estimation for protein identification (using
reversed decoy database together with target database in a single file).
I can estimate the probability threshold for peptides to get for example 1%
FDR. My question is how to use this peptide probability
Hi,
Interpretation of e-values will always be coupled to the database size
(more appropriately, the size of candidates for a particular spectrum). So,
I do not think it is the correct metric for controlling false positives.
When the authors had suggested using e-values, I believe FDR was not in
Hi Pavel,
The choice of peptide-level FDR or protein-level FDR depends on what
conclusions you hope to make. If you want to make conclusions about the
peptides you have identified, you can use peptide-level FDR. If you are
trying to identify proteins for biological reasons you should use
