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Nesvilab / philosopher

PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering
https://philosopher.nesvilab.org
GNU General Public License v3.0
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FDR ISSUE #464

Open kwynne71 opened 11 months ago

kwynne71 commented 11 months ago

Hi Fengchao, Hope you are well. I had an error see below, Do you suggest changing the fdr from 0.01 to 0.05 in the "fdr filter and report"section of the "validation tab" and if so is this okay.

ERRO[21:06:13] the protein FDR filter didn't reach the desired threshold, try a higher threshold using the --prot parameter Process 'PhilosopherFilter' finished, exit code: 2 Process returned non-zero exit code, stopping

AimeeD90 commented 11 months ago

Can you share the whole log file with us? Just want to know how many initial identifications before applying FDR filtering.

kwynne71 commented 11 months ago

log_2023-09-24_20-19-02.txt https://drive.google.com/file/d/1oLomE4NAW9wxK5RGOGgraAkUYpPxhAgz/view?usp=drive_web Hi Yamei, Here you go. Best Kieran

On Mon, 25 Sept 2023 at 19:40, Yamei Deng @.***> wrote:

Can you share the whole log file with us? Just want to know how many initial identifications before applying FDR filtering.

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