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Unable to open mzdata.xml #601

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XiaoleiOceano opened this issue Apr 9, 2024 · 1 comment
Open

Unable to open mzdata.xml #601

XiaoleiOceano opened this issue Apr 9, 2024 · 1 comment

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@XiaoleiOceano
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Hi MSnbase community;

I am recently learning to use R based pacakges for my un-targeted workflow. We are using agilent qtof and I use agilent qual to export mzdata.xml format LC-MS data.
However, I was not able to use xcms/mzR/MSnbase to open the files, which is really bizarre. And same messages returned every time saying it "Could not determine file type". I was able to open the same files on python with pyopenms so I think the file should be ok.
Any suggestions? And pleease let me know if any other information would be helpful to debug. Thank you!

@lgatto
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lgatto commented Apr 9, 2024

  • Support for mzData was dropped some time ago. I would recommend to convert/export your data to mzML.
  • Please use the R for Mass Spectrometry infrastructure, that supersedes MSnbase.

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