[ome-users] Omero.tables view for images

[Frederik Grüll]

Hi Simon,

Thank you for your answer. I think I will go with the key-value store.

I saw table information for images in the webinar "OMERO Plus for High
Content Screening & Analysis" at 0:46:04. Is this only supported by
OMERO Plus?
https://glencoesoftware.com/webinars.html

Cheers,

Frederik


On 25.10.2016 14:16, Simon Li wrote:
> Hi Frederik
>
> We don't have a way of directly displaying Table information alongside
> images at the moment. However we've done some related work for the IDR
> project, where we built a CLI plugin to convert a table into
> MapAnnotations on images, e.g. see the Key-Value pairs on
> http://idr-demo.openmicroscopy.org/webclient/?show=image-1920093
> <http://idr-demo.openmicroscopy.org/webclient/?show=image-1920093>
>
> The main rationale for this approach was to distinguish between the
> raw data held in the table, and the client-visible view of that data.
>
> It's still considered "developmental", but you can see previousl
> conversations on the topic here:
> -
> http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-June/003694.html
> <http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-June/003694.html>
> -
> http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-August/003733.html
> <http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2016-August/003733.html>
>
> And some example configuration files here:
> -
> https://github.com/IDR/idr-metadata/blob/master/idr0018-neff-histopathology/experimentA/idr0018-experimentA-annotation.csv
> <https://github.com/IDR/idr-metadata/blob/master/idr0018-neff-histopathology/experimentA/idr0018-experimentA-annotation.csv>
> -
> https://github.com/IDR/idr-metadata/blob/master/idr0018-neff-histopathology/experimentA/idr0018-experimentA-bulkmap-config.yml
> <https://github.com/IDR/idr-metadata/blob/master/idr0018-neff-histopathology/experimentA/idr0018-experimentA-bulkmap-config.yml>
>
> I'll have to check whether the support for populating Images in
> Datasets made it into the last release.
>
> Hope this helps
>
> Simon
>
>
>
>
>
>
> On 25 October 2016 at 10:54, Frederik Grüll <frederik.gruell at unibas.ch
> <mailto:frederik.gruell at unibas.ch>> wrote:
>
>     Dear all,
>
>     the OMERO webclient offers a nice overview of table data for wells
>     in a
>     screen with OMERO.tables. I can import the data with the script
>     "Populate Metadata" and see it in the table accordion on the right
>     pane.
>
>     Is there a way to have the same for images instead wells? I made some
>     experiments, eg. with
>     https://github.com/openmicroscopy/openmicroscopy/blob/v5.2.6/examples/OmeroTables/MeasurementTable.java
>     <https://github.com/openmicroscopy/openmicroscopy/blob/v5.2.6/examples/OmeroTables/MeasurementTable.java>
>     and by adjusting "Populate Metadata", but could not make the table
>     appear for images.
>
>     Cheers,
>
>     Frederik
>
>
>     --
>     Dr. Frederik Grüll | Imaging Expert | G1055, Biozentrum, University of
>     Basel | Klingelbergstr. 50/70 | CH-4056 Basel Phone: +41 (61) 207
>     2250 <tel:%2B41%20%2861%29%20207%202250> |
>     frederik.gruell at unibas.ch <mailto:frederik.gruell at unibas.ch> |
>     www.biozentrum.unibas.ch <http://www.biozentrum.unibas.ch>
>
>
>     The University of Dundee is a registered Scottish Charity, No:
>     SC015096
>
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-- 
Dr. Frederik Grüll | Imaging Expert | G1055, Biozentrum, University of
Basel | Klingelbergstr. 50/70 | CH-4056 Basel Phone: +41 (61) 207 2250 |
frederik.gruell at unibas.ch | www.biozentrum.unibas.ch
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