[ome-users] Correct use of annotations in OME

[Will Moore]

Hi Tom,

 This sounds like a nice way to go.
You will certainly be able to edit all those annotations (as Comments / Tags) in OMERO.insight.

Insight will also let you filter images by Tag, but not filter Datasets at the moment. 

If you haven't already read it, this page should be useful to you: http://trac.openmicroscopy.org.uk/ome/wiki/OmeroJava


  Will



On 31 May 2012, at 11:28, Tom Kazimiers wrote:

> Hi all,
> 
> to manage the image and meta data in our lab, I try to get OMERO to
> annotate data sets in a certain way, but am unsure about the correct way
> to do so. Hence this mail :-).
> 
> Up to now we used a small tool I wrote to find and look at the data set
> of interest. This is just a prototype and works as a Fiji plugin. I now
> planned to do a rewrite and figured that maybe OMERO.server could be
> used as a back-end. This would have many advantages for me, e.g. no need
> for own data management. I will either extend one of the existing
> clients or build a new one for my purpose. Now I want to find out how I
> describe my current data model with OME. Therefore I'll briefly describe
> what this simple date model is.
> 
> This data viewer tool opens a project which can have many experiments.
> Each experiment has a name, some linked data (file paths, not only
> images, also text, xls, pdf) and a set experiment conditions. Based on
> that the tool provides a user interface that allows one to filter
> certain experiments based on selectable conditions. Such conditions can
> e.g. be a marker, type of experiment (e.g, a position in the tisuse
> (e.g. posterior), etc.. In the user interface I now can select all the
> conditions I want to filter experiments. These experiments can then be
> opened in the actual data viewer. The data viewer is a separate topic,
> for now I want to find a good way to define this model (projects,
> experiments, structured conditions) in OME.
> 
> I thought one of my experiments would be a Dataset in OME, then I could
> link images and other data like xls end pdf (as file annotations?) to
> it. The conditions could probably be annotations, too. Based on the
> samples from structured annotation wiki page, these would just be string
> annotations. Now does this make sense to organize my data that way?
> Would this data then somehow be editable in OMERO.insight?
> 
> Thanks in advance,
> Tom
> 
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