anesvi
commented
4 hours ago Your database has only 42 peptides. Is it just a single protein ? Tools like Percolator or PeptideProphet are not applicable when too few PSMs. You can see if percolator works but I doubt. You need to search a bigger database or not use those tools and not apply FDR filters
Hi all,
I'm having a similar proplem to that deatiled in this thread so I thought I'd open up a new issue. I double-checked and I didn't have any problems with my FASTA file, so I'm not sure why PeptideProphet is failing. I'm attaching my log and fasta file (in my workflow i have it as a fasta.fas file but converted to .txt to attach it here) in case y'all might be able to help. This is a spectral library for a single protein using DDA data generated on TF Orbitrap Ascend.
log_2024-10-23_17-43-33.txt
2024-10-23-decoys-Martin_P37840.txt
Cheers, Martín