[ome-devel] Spectral Chemical Imaging Data

[Alan Race]

MSiReader uses the code that I wrote to parse imzML (there’s a JAR file included in there called imzMLConverter) so it should work well with our data.

The resolution in m/z doesn’t vary from pixel to pixel (potentially very slightly, but mass resolution is primarily influenced by the instrument) however, only the non-zero intensities are stored and we may detect very different ions in any two pixels (hence very different spectra lengths). Thank you for your help and insight so far and also for your continued efforts.

Regards,

Alan

From: Munro, Ian [mailto:i.munro at imperial.ac.uk]
Sent: 18 November 2015 14:33
To: Alan Race <alan.race at npl.co.uk>
Cc: p.walczysko at dundee.ac.uk; ome-devel at lists.openmicroscopy.org.uk
Subject: Re: [ome-devel] Spectral Chemical Imaging Data

Thanks Alan

I’ve started experimenting using this software http://www4.ncsu.edu/~dcmuddim/msireader.html  and what I’m seeing
seems to correspond well with your description so I think I’m ok with software for now.

I take it  then that the resolution in m/z varies as well from pixel to pixel? If so I may have underestimated the difficulty of storing your data into OMERO.  I’ll take this back to the core team for their thoughts.

Regards

Ian





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