Hi Daniel,
OK, I think I found the source of this problem. The targeted peak detection
module is considering the retention time scale in minutes, while other peak
detection modules use scale in seconds.
Since your peaks are much shorter than 1 minute, it is not surprising that your
areas are smaller than heights. However, the numbers should be consistent with
other modules, so I just committed a change to the targeted peak detector to
fix this. This will be included in the next MZmine release, but I cannot
promise that would happen soon, because I am too busy with other work at the
moment.
In the mean time, you can consider using the chromatogram builder instead of
the targeted peak detection, or you can try multiplying all your peak areas by
60.
Best regards,
Tomas
On Feb 28, 2013, at 12:58 AM, "Müller , Daniel"
<da.muel...@tum.de<mailto:da.muel...@tum.de>> wrote:
Dear Thomas,
i wanted to do a targeted peak detection using MZmine 2.10. However, the peak
areas of the peaks are smaller than the peak height (like it has been before
MZmine 2.9 with the gap filling). I think, areas should be higher than the
height. I attached you the mzmine project, the target file and an screenshot
where you can see the difference between height and area.
My setup:
Version: MZmine 2.10
OS: Windows 7
Java: Version 7.0.90.5
R: 2.15.1
HEAP_SIZE=10240
MZmine settings:
Raw data import - from .cdf -file
Targeted peak detection:
peak list from .csv -file
Field separator: ","
Intensity tolerance: "90 %"
m/z Tolerance: 0.1
Retention time tolerance: 0.1 min (absolute)
Have you seen this problem before?
Thank you in advance for the support
Daniel
________________________________________
Von: Tomas Pluskal [plus...@oist.jp<mailto:plus...@oist.jp>]
Gesendet: Dienstag, 26. Februar 2013 08:52
Bis: Developer discussion
Cc: Müller , Daniel
Betreff: Re: [Mzmine-devel] MZmine-Targeted peak detection-areas smaller than
peak height
Dear Daniel,
Please follow the "How to report problems with MZmine 2" section of the manual.
Tomas
On Feb 26, 2013, at 1:46 AM, "Müller , Daniel"
<da.muel...@tum.de<mailto:da.muel...@tum.de>> wrote:
Dear Developers,
i wanted to do a targeted peak detection using MZmine 2.10. However, the peak
areas of the peaks are smaller than the peak height (like it has been before
MZmine 2.9 with the gap filling).
Thank you in advance for the support
Daniel
TU München
------------------------------------------------------------------------------
Everyone hates slow websites. So do we.
Make your web apps faster with AppDynamics
Download AppDynamics Lite for free today:
http://p.sf.net/sfu/appdyn_d2d_feb_______________________________________________
Mzmine-devel mailing list
Mzmine-devel@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/mzmine-devel
===============================================
Tomas Pluskal
G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University
1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan
WWW: https://groups.oist.jp/g0
TEL: +81-98-966-8684
Fax: +81-98-966-2890
<targets_mzmine_20130222.csv><targeted_20130227.mzmine><Picture2.jpg><log
file.docx>------------------------------------------------------------------------------
Everyone hates slow websites. So do we.
Make your web apps faster with AppDynamics
Download AppDynamics Lite for free today:
http://p.sf.net/sfu/appdyn_d2d_feb_______________________________________________
Mzmine-devel mailing list
Mzmine-devel@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/mzmine-devel
===============================================
Tomas Pluskal
G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University
1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan
WWW: https://groups.oist.jp/g0
TEL: +81-98-966-8684
Fax: +81-98-966-2890
------------------------------------------------------------------------------
Everyone hates slow websites. So do we.
Make your web apps faster with AppDynamics
Download AppDynamics Lite for free today:
http://p.sf.net/sfu/appdyn_d2d_feb
_______________________________________________
Mzmine-devel mailing list
Mzmine-devel@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/mzmine-devel
