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MS-DIAL / SCIEX 5600 Qtof data (IDA mode) with MSDIAL
I met a problem when I implemented MSDIAL to process data from SCIEX5600 acquired with data-dependent (IDA) under positive ESI mode. When I directly use PeakViwe to check how spectra look like, for 2 standards (chaconine and solannine), they all seem good with pretty good spectrum quality as showed in A1 and B1, however, after MSDIAL processing these 2 centroided mzML file, all fragments are gone (A2 and B2), I’ve no idea how to solve this problem.
I stored these 2 std mzML files here(https://drive.google.com/file/d/1nMarlhWt64bdIIrXmMeAqGvEXjAz5y7H/view?usp=sharing
and https://drive.google.com/file/d/1JYyu7MJlbUP8Ih3-nQPZf5BWG3o2XLRS/view?usp=sharing), please download them and give it a shot. The expected spectrum should pretty like showed in A1 and B1, the parameters setting also attached here. The version I’ve used is MSDIAL 4.6.
Many thanks for your help!