Hi Anastasia,

Please send your messages to the mzmine-devel mailing list, not to individual 
authors.

Regarding to your problem, you should write what parameters you used for the 
Chromatogram builder. 
Then I can take a look at your file and check where is the problem.

Best,

Tomas

On Nov 5, 2010, at 1:28 AM, Anastasia Chasapi wrote:

> Hello,
> 
> My name is Anastasia Chasapi and I am a Master's student at the University of 
> Geneva. I came across MZmine-2.1 and I found it very interesting and 
> convenient for the analyses required at my thesis.  
> 
> I was trying the different options of the program and I imported one .mzXML 
> file with MS1 data. The acquisition was done at a ESI-TOF, using 2 different 
> energy modes. The problem I faced is that while in the raw data I can spot 
> many molecules and in high intensities, when I use the Chromatogram builder 
> and look at the peaklist table some of the masses disappear. 
> 
> Here is a link to the .mzXML file that I used: 
> http://rapidshare.com/files/428879210/140710-104.mzXML.zip
> 
> For example there,at time point 3:20, one can see a very intense peak with 
> m/z = 453. However, if you go to the peaklist created after the Chromatogram 
> builder option, and find the same retention time, the peak is no longer 
> there. I already tried to change the options of the Chromatogram builder but 
> nothing changed. 
> 
> Could you maybe help me understand what I'm doing wrong?
> 
> Thank you very much
> 
> Regards
> Anastasia
> 
> 

===============================================
Tomas Pluskal
G0 Cell Unit, Okinawa Institute of Science and Technology
1919-1 Tancha, Onna-son, Okinawa 904-0412, Japan
TEL:  +81-98-966-8684




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