Dear all, I wonder if anyone has encountered this problem: For < 80 files, Peptideprophet works normally, but when there are more than 80 files, it doesn't start at all.
If we split them up into 2 batches to run peptideprophet, the statistical distributions that we obtain would be different since it may happen that we unknowingly choose a group of poor scoring spectra to model for 1 batch, while the other batch contains high scoring ones. Would the peptideprophet probabilities obtained for the poor scoring batch be reliable ? Ideally we should analyse the distribution across all the files from a single sample (separated into different protein fractions) altogether, isn't it? Would really appreciate if someone could enlighten on this, and whether this can be gotten around by simply merging the some of the smaller pepxml files in the first place. Thanks, Bernt --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en -~----------~----~----~----~------~----~------~--~---
