|Peak with high mass error not found||katrin freiburghaus||2020-04-23|
Dear Skyline team
I encountered the following problem: Our Q-Exactive Orbitrap was not well calibrated and produced data with high mass errors (up to 70 ppm deviation) for all small molecules. I imported the SST files into Skyline and it did not integrate any peaks (see attachement "Skyline_Kynurenic_acid") using the attached transition settings. But when I integrated the exact same file using TraceFinder software, I saw the peaks (attached TraceFinder screenshot for kynurenic acid, mass error -53 ppm).
I adapted the "method match tolerance m/z" in the Transition Settings to the allowed 0.6 m/z, but still no integration of my peaks.
Could you let me know what I am doing wrong and how I can get my results in spite of the high mass error?
Thank you very much for your help and best wishes