Has anyone used RT correction successfully? I can see that it works to align the shifted peaks from my two batches of analysis (see RT_correction screenshot) but the peaks are distorted. See other pics for examples. Won't this affect quantification?
I'm running v4.9.221218
Thanks,
Chris
Yeah, I don't like this. Instead I've worked out that converting your data to mzML means you can just add an RT shift to the time value of each scan. I've just done a fixed shift but if I spend a couple more hours sampling different shifts between my batches I could use a function to correct it instead.
Please tell me more about this, is this done in ProteoWizard? I follow your blog and have benefitted when converting .L to .msp and merging them, so thank you.
Hi, glad you found that post useful. It took me a year or so to work it out for myself so I'm glad other people are benefitting. Is it too late to give it a DOI? :))
To manually shift the RT of mzML files you need to write a script that creates a copy of the file line-by-line and edits the RT with a fixed shift. It's simple brute force but it works. I thought about using a polynomial instead but that will corrupt the quantitative information in the data as this depends on a uniform scan interval.