David L. Tabb

I believe that this file will produce the same error, while being a simpler example (it's an inclusion list experiment with only four m/z values on the inclusion list). https://drive.google.com/file/d/1ycQiwAlcCHMWqfJlg7msdnKKoVrwZ6LK/view?usp=sharing...

I think flagging missing trailers with a warning is an appropriate response. I appreciate your looking into these files. Previously, I was only able to convert their contents to a...

Thank you for this rapid work! I am using the command line with these options: "-f 0 -P -L 1-" I have a couple points of feedback: 1. Even though...

Oh, I had one other question; do the RAW files make any indication of which MS/MS scans are combined to produce the "Average Spectra" seen in the MSn Browser of...

I am sad to report that the FreeStyle Xtract-produced RAWs do not preserve scan numbers. I speculate that the new RAW files skip over MS or MS/MS scans that do...

Upon further investigation, I believe the problem was caused by my adding whitespace in the PTM configuration file IP-PTMs.txt!

Hi, Konrad. Because I routinely run MSPathFinderT with only target sequences, I filter PrSMs to require e-values below 0.01 (a similar rule exists in TopPIC) and Probability scores above 0.5....

Hi, Konrad. I saw your interesting result from MSPathFinderT on PBFs generated from RAW and from mzML routes. I was surprised by the degree of difference you saw, though, since...

Yes, I am encountering places on the pFind website that suggest that (older?) Linux versions of this software can be downloaded, but I have not managed to find or form...

I am taking a look at this pull request, and I'm not seeing any problems (except that I barely understand what a pull request represents).