![]() From my short tests it appears that some newer versions of masslynx will do the conversion correctly without this now.ī) Some files now seem to have the correction baked in. Options are:Ī) Some files will need the lockmassRefiner filter in msconvert. Now it appears that the solution depends on how the files were recorded and the version of masslynx. It used to be that msconvert were not able to use the lockmass information to calibrate the masses. You can get around it by centroiding the files in masslynx to create centroided raw files that can then be convertedĢ) Accurate mass. For waters data msconvert cannot use the Waters centroiding algorithm. If you open the _extern.inf file inside the raw folder each function is described at the bottom.įor conversion with proteowizard you have two problems:ġ) Centroiding (if your files actually were recorded in profile mode). One could be a low energy scan and the other a high energy scan, or MSE. Analyzing different functions together probably doesn't make much sense. You will need to know what is in each function/scanEvent to know what is best to do. has this since been updated? As a return to masslynx would be a nightmare for me as I do not have a license and would need to travel to use it!Īnyways I am feeling very lost and due to the size of the files in question trying things to see if they work takes such a long time so if anyone has any suggestions it would be much appreciated. I have tried a while ago to convert files using proteowizard but it doesn't or at least didn't seem to like waters files at the time. ![]() but others suggest using proteowizard to convert. I have seen some other threads suggesting that waters users need to go back to masslynx and make sure all their data is centrioded before they export and convert. 1.cdf and 2.cdf) is meaning that I am losing information, is this concern valid? I have been trying to use xcms online but I am worried that the division of my mass spec info (ie. ![]() raw files but it doesn't seem to like the scan filter and I have a lot to get through so moved onto my. raw data run on a ULPC water synapt G2 which I converted using databridge, this gave me four files, I think one is lock spray and one is UV data.3.cdf and 4.cdf I have been trying for a while now to make sense of all of the software etc. ![]()
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