How to subtract blank MS spectrum from sample MS spectrum (MassHunter Qualitative Analysis B.04)?
I am currently working on ESI-MS spectra of methyl linoleate and its autoxidation products. Before acquiring the sample MS spectrum, I recorder the blank spectrum. Now that I am working on the final data, I have problems subtracting the blank spectrum from the sample one.
I normally select the sample MS spectrum, right click on it and choose "Subtract any spectrum". Then double click on the blank spectrum. Now, what happens is that the sample spectrum is modified and the title now says "Subtract". However, some peaks clearly related to the blank are still included in the sample MS spectrum, which is worrisome because it confuses me when choosing the right peaks to evaluate.
I then ask you what is the best way to subtract a blank spectrum and make sure you subtract it accurately?