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Topic: Problem with annotation of lipidomics data MSDIAL v. 4.9.221218.  (Read 120 times) previous topic - next topic

Problem with annotation of lipidomics data MSDIAL v. 4.9.221218.

Hello all,
I came across a problem when annotating lipidomics data from Thermo instrument (.raw) using the latest MSDIAL version 4.9.221218. On average, I see ~70% fewer reference matched annotation compared to version 4.90 when using the same parameters (same parameter file) on the same raw data.  Both versions detect roughly the same total number of features but the number of ref. matched is ~70% less in v. 4.9.221218

Here is an example using commercially purchased brain extract:
v. 4.90:
Total number of features: 8606
ref. matched: 852
v. 4.9.221218
Total number of features: 9688
ref. matched: 202

Interestingly, I only observed this using Thermo data. Processing Sciex data worked OK.
Is there something that needs to be changed as far as processing parameters go for the latest version vs version 4.90?

Thank you,
Vladimir.

 

Re: Problem with annotation of lipidomics data MSDIAL v. 4.9.221218.

Reply #1
I have the same problem with Thermo Mass Spectrometer.