Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful for your research, please cite "Gessulat, Schmidt et al. 2019" DOI 10.1038/s41592-019-0426-7
Just passing on a problem I'd hit with rescoring. I'd found some strange behaviour using Percolator with the --subset-max-train flag and I've seen --subset-max-train in the Prosit web server Percolator output as well. This is the original issue:
Hello,
Just passing on a problem I'd hit with rescoring. I'd found some strange behaviour using Percolator with the --subset-max-train flag and I've seen --subset-max-train in the Prosit web server Percolator output as well. This is the original issue:
https://github.com/percolator/percolator/issues/332
So you may wish to remove the flag.
Best wishes, John.