Comments (2)
Dear Anupam,
yes, the xml files should be all in one folder. Also, maybe it might be better to just download the "MS/MS Spectra Files (XML) - Experimental" - you will not need the NMR or GC-MS spectra.
Regarding mouse - I don't know where (or if) you could download the mouse metabolome data - and I don't think they will follow the same format than HMDB, thus you might not be able to import that data. But AFAIK many metabolites are the same across species, so using HMDB might be maybe a good starting point?
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Dear Johannes,
Thank you for the suggestions, I figured out that the function doesn't recursively check in the subdirectory, but didn't knew that we only need the experimental ms_ms file (thank you for the information).
For the mouse, I will proceed with HMDB for now.
Regards,
Anupam
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Related Issues (20)
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