Problem with importing msfragger output into skyline | jdemeter | 2023-08-03 10:31 | |||||||||||||||
Hi, I am trying to import peptide search results from msfragger into skyline (timstof pro, dda). This process used to work with the pep.xml, mgf and .d files, but now it stopped working and I get an error message (see attachment) of not finding the appropriate source files. When I use mzML with the pep.xml files, the library is generated fine, but the peaks are not imported correctly (see second attachment). I tried this using the latest skyline and skyline-daily with the same result. Any help would be appreciated. Thank you, |
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