Hi Ian,<div><br></div><div><div>Thanks for this update; very informative. It looks like you have done a lot to bring FLIM processing into OMERO, which is great.<br></div></div>
<div><br></div><div>I want to draw your attention to some very similar work we are doing within ImageJ:</div><div> <a href="http://loci.wisc.edu/software/slim-plugin" target="_blank">http://loci.wisc.edu/software/slim-plugin</a></div>
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<br></div><div>The SLIM Plugin is an ImageJ plugin (written in Java, of course), which uses the SLIM-curve library (written in cross-platform C) to perform the curve fitting (of TCSPC data).</div><div><br></div><div><div>
> The Imperial/Photonics Group’s main FLIM analysis software is</div><div>> internally named “GlobalProcessing”. It is written in MATLAB and</div><div>> provides state of the art fitting of time domain data for both</div>
<div>> laser-scanning time-correlated single photon (TCSPC) and wide-field</div><div>> time-gated FLIM images.</div></div><div><br></div><div>Perhaps GlobalProcessing and SLIM-curve could join forces? It is much easier to access C code from Java than MATLAB code, but there are clearly features in GlobalProcessing missing from SLIM-curve (e.g., wide-field), and vice versa.</div>
<div><br></div><div><div>> 1) We intend to standardise on encoding FLIM data using ModuloAlongT.</div></div><div><br></div><div>Personally, I dislike ModuloAlongT, especially as a long-term solution. There are certain dimension orders that are simply impossible using it (e.g., XYbCZT, where "b" is lifetime bins, and T is actual time points). I would much favor us developing a true N-dimensional OME data model, and using that, moving forward.</div>
<div><br></div><div><div>> 2) Where should the functionality currently in IC-importer fit into</div><div>> the OMERO eco-system?</div></div><div><br></div><div>I agree that this functionality would work well as a Bio-Formats reader.</div>
<div><br></div><div>Regards,</div><div>Curtis</div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Nov 28, 2012 at 5:11 AM, Munro, Ian <span dir="ltr"><<a href="mailto:i.munro@imperial.ac.uk" target="_blank">i.munro@imperial.ac.uk</a>></span> wrote:<br>
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<div>Hello all<br>
<br>
Please find attached a document describing where the work of the Imperial satellite currently stands.<br>
We've reached a point where our group is making decisions, regarding the handling of data with a 6th dimension,
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that may well have future implications for the OMERO clients or for other groups working with 5+ dimensions.<br>
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As a result we're looking for any feedback/improvements that anyone can offer on our current approach<br>
In particular the 3 areas highlighted on the second page of the document.<br>
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Thanks in advance for your time.<br>
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Ian<span><font color="#888888"><br>
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Ian</font></span></div>
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