[ome-devel] extending OMERO

[Jason Swedlow]

Hi Stephen and Roger

Thanks for this.  A very interesting idea, and one that I can imagine many people could make use of.
Obviously, the starting point for this discussion is

http://www.openmicroscopy.org/site/support/omero5/developers/index.html

We'll be having workshops at the upcoming Users Meeting on using and consuming OMERO's API in various ways.  Those discussions might also be useful.

I think some of our team will respond with more detail soon. Please do let us know how we can help.

On the issue of LSFM, we do have some test datasets.  The current status of our work in this domain will be shown at the upcoming Paris Users meeting.

Cheers,

Jason

Centre for Gene Regulation & Expression | Open Microscopy Environment | University of Dundee

On 23 Apr 2014 17:26, Stephen Taylor <stephen.taylor at imm.ox.ac.uk> wrote:
>
> Hi,
>
> We are planning to extend OMERO to be able to support our zoomable image and query interface called PivotViewer (for details see http://www.cbrg.ox.ac.uk/data/pivotviewer/intro.shtml) or to view it in action, see the YouTube movie (https://www.youtube.com/watch?v=BvDOPpRo7KM).
>
> We have 3 main goals:
>
> 1) Visualise OMERO projects by :
>         i)  Generating indices for PivotViewer by doing an export of metadata (possible from the HDF5 tables) and images from the OMERO database.
>         ii) Exporting the images + metadata on the fly.
> 2) Use the results of filtering operations to run OMERO.scripts and see the results in PivotViewer.
> 3) Use the results of filtering operations to be able to annotate back to the OMERO database. So for example, I might choose a subset of images that I think are badly stained and tag them as 'stained=bad' or similar.
>
> I am trying to pull together enough technical information to define how much work would be required to do this as part of a grant application. Would anyone on this list be able to help?
>
> Also, if any developers are interested in collaborating on this project please let me know!
>
> Kind regards and thanks,
>
> Steve
> =======================================
> Head of Computational Biology Research Group
> Weatherall Institute of Molecular Medicine
> University of Oxford
> www.cbrg.ox.ac.uk
>
>
>
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