Xcalibur - Qaul Browser - plot types - neutral fragment?

[Helen F. Sturt]

Hi all,

I'm doing some pretty heavy duty data processing in Qual browser and
normally use the base peak plot type,
does anyone know anything about the plot type "neutral fragment" ... it
would be really nice to plot chromatograms of neutral losses or common
fragment ions.. (like in the ion map view but with retention time data!!!)
however, choosing the plot type and a suitable fragment/loss seems to
give me blank chromatograms... any clues anyone? the help function
doesn't mention it at all, neither does the manual... are they just
teasing me?

thanks

Helen

[Heino Prinz]

Am Wed, 13 Aug 2003 16:29:52 -0400 schrieb Helen F. Sturt
<hst...@whoi.edu>

It only works with MS/MS experiments, of course. So if you have MS/MS
experiments in your run (such as their "triple play" which lets you
run MS/MS for the main peaks of doubly charged molecules or any other
MS/MS dependent scan) in DISPLAY/RANGES of view chromatogram you type
"ms2" as the scan filter. Then plot type "neutral fragment" and type
the mass of interest. It works.

Viele Gruesse Heino

Tel.:(++49)-231-133-2480 Fax: (++49)-231-133-1038

[Helen F. Sturt]

thanks Heino,

I use a data dependant ion tree method on all my samples, so i wanted to
scan the chromatogram for common losses, I was hoping i could apply the
neutral fragment plot to the full scan base peak plot and it would show
me where all the MS2 with a common loss eluted, i guess it doesn't work
quite that way. Ho hum

thanks for your help

Helen