[ome-users] Importing DICOM 3D series (sets with individual image files together forming a 3D volume)

[Jason Swedlow]

Hi Frans-

Good question.

On the one hand, this would seem to be the kind of functionality any  
decent image processing system would have-- cutting and fusing images.  
With OMERO, the way to do this is to build a script that would run  
this function.  OMERO has a full scripting service, which we are just  
starting to expose and support:

http://trac.openmicroscopy.org.uk/omero/wiki/OmeroScripts

This will be the way we do most work with processing and analysing  
data in OMERO.

In Beta4, we are still delivering all the various bits of  
functionality for competent data management.  But as we go forward in  
2009, we will be devoting more resources to delivering image  
processing and analysis modules, like the one you have mentioned.

Cheers,

Jason

On 10 Feb 2009, at 10:54, Cornelissen, Frans [PRDBE] wrote:

>
> Hi,
>
> When Importing DICOM series, I select all the individual files from a
> series in the importer.
> This works, but the files are not used together as a 3D volume, iow  
> the
> imdivudual files should be used as slices from a Z-stack.
> The information to do this is present in the DICOM metadata attributes
> inside  each file.
>
> How can we do the import to remediate this? Or would the importer have
> to be adapted to realize this?
>
> Thanks,
> Best regards, frans cornelissen
> _______________________________________________
> ome-users mailing list
> ome-users at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users



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