Metabolomics Society Forum

Software => MZmine => Topic started by: taekyupark on November 14, 2017, 06:32:54 PM

Title: mzmine chromatogram deconvolution
Post by: taekyupark on November 14, 2017, 06:32:54 PM
I have been working with mzmine2 but there're some problems.


When I use XCMS, one of the 'chromatogram deconvolution' algorithms in mzmine2, I should enter the right value to each parameter(S/N threshold, Wavelet scales). However, it's so difficult to enter the right value because I don't know the criteria for determining the value.


Does anyone know the tips about determining parameter value?
Title: Re: mzmine chromatogram deconvolution
Post by: Jan Stanstrup on November 15, 2017, 01:49:57 AM
I think the parameters are named slightly differently in mzmine but here is a tutorial for how to estimate reasonable parameters in xcms: https://rawgit.com/stanstrup/XCMS-course/master/1.%20XCMS.html
Title: Re: mzmine chromatogram deconvolution
Post by: taekyupark on November 15, 2017, 04:16:49 AM
Thank you so much!! :D  :D
I really appreciate your ppt link!!
Title: Re: mzmine chromatogram deconvolution
Post by: agentfourtea7 on October 29, 2022, 08:06:47 AM
I think the parameters are named slightly differently in mzmine but here is a tutorial for how to estimate reasonable parameters in xcms: https://rawgit.com/stanstrup/XCMS-course/master/1.%20XCMS.html

I know it has been a while since you posted this, but any chance this is still available on another active link? - with time RawGit has been discontinued and therefore I cannot access your resource on that link.

Thank you