Data upload and processing with XCMS

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Data upload and processing with XCMS

June 01, 2012, 03:18:38 AM

Hello,
I'm unfamiliar with R and have had little success getting what I'm looking for from XCMS.
My goal is to obtain a data matrix of aligned (untargeted) components and retention times, with the data made up of peaks areas. The data is from an Agilent LC-QTOF instrument. I have transferred the data files into mzData format and saved it in the same directory where R is installed. My first problem is
- I could not able to upload data files for analysis. It always comes with a error message.

Does anyone happen to have a set of example command lines they can copy and paste to me to complete a LC/MS data analysis obtained from LCMS system?

Thanks in advance for your help!
Utpal

Re: Data upload and processing with XCMS

Reply #1 – June 01, 2012, 12:31:38 PM

Hi,

and welcome to xcms. There is extensive documentation, and you could start
with http://bioconductor.org/packages/2.11/b ... /xcms.html
and there especially "LC/MS Preprocessing and Analysis with xcms".

Yours,
Steffen

Re: Data upload and processing with XCMS

Reply #2 – June 04, 2012, 07:53:42 PM

Hi Steffen

Thank you for your reply. Now it works for me.

Thanks,
Utpal