[ome-devel] Storage format for 'fitted' parameter (FLIM) images?

[Munro, Ian]

Hi Lars

I'm aware of some of the issues. We are concentrating on time-domain TCSPC initially. TCSPC because the file formats are common to many sites
& time-domain because that's the area in which our group have some expertise.

I agree re-fitting is possible but far from ideal.

Ian


On 23 Feb 2012, at 17:18, Kästner, Lars wrote:

Hi Ian,

first of all: good to know that FLIM data become an issue for OMERO - something I proposed many years ago and I already gave up the hope it happens ;-)
I am not sure if everybody is aware of the fact that different FLIM-microscopes do not just provide different data formats but in dependence of technology totally different data qualities (e.g. TCSPC, streak camera based, time gated cameras or PMTs, frequency modulation etc.).

I share the concerns, but believe a loss of precision is acceptable as an intermediate result. If necessary data can still be reanalyzed (fitted).

Best,
Lars.


Dr. Lars Kaestner
Reseach Centre for Molecular Imaging and Screening
School of Medicine
Building 61
Saarland University
66421 Homburg / Saar
Germany

ph. +49 6841 1626149
Fax +49 6841 1626104
Am 22.02.2012 um 13:16 schrieb Munro, Ian:

HI all

At the recent Dundee meeting I described 3 categories of data required to make OMERO compatible with
fluorescence lifetime imaging  (FLIM).

1) 'raw'  time-resolved intensity data (as acquired by the microscope)
2) fitted (floating point) parameter 'images' (generated by fitting software)
3) merged RGB maps. (for inclusion in papers etc)

Currently the 2nd type is stored as a .csv image by the fitting code that Donald has already included in OMERO.
There is concern here over this for two reasons:

1) iIt is inefficient  in terms of storage.
2) There will inevitably be a loss of precision.

Could we change to another format for this (assuming it isn't too late) ?
If so what format?

Any thoughts welcome.

Regards

Ian
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