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Issue in reading MS2 level data with mzML files converted from .raw files in MS convert

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Issue in reading MS2 level data with mzML files converted from .raw files in MS convert shanthini kannan  2024-12-12 14:16
 

I use the version : Version: 3.0.24196-4dd34ff in MS convert
I acquire data from Waters Vion qTOF in MSe mode.
When I try to convert the UEP files to mzML files, I can see both the MS level data. To look at the data i use Msnbase package in R , by loading the data with readMSData function.
When I try to convert the Masslynx. raw files to mzML files with MS convert , then load in R with the function mentioned above. It reads all the spectra as MS1 ..
Kindly please help.. I am hereby attaching a sample file..
 
 
Nick Shulman responded:  2024-12-12 14:22
It sounds like you tried to attach a file but nothing actually got attached.
The maximum size of file that can be attached to these support requests is 50MB.
You can always upload larger files here:
https://skyline.ms/files.url
-- Nick
 
shanthini kannan responded:  2024-12-13 04:25
Hi Nick, I uploaded the file : Its QC1_3_MSewaters.raw