[ome-users] OMERO Import - 2+ tiff files

[Matthew.Smicker at sanofi-aventis.com]

We are able to export files from a proprietary format into a relatively
metadata-free tiff format (unfortunately).  Multiple channels are
exported as separate files.  Filenames contain the metadata (channel,
well).

I would like to have at least the channel info properly imported within
OMERO.

Is there a way to either:
1 - manually assign this info after the fact (merge the 2+ images to one
and assign channels)
2 - merge the images in imagej for import info OMERO

I've tried creating a stack in imageJ, but it treats the channel images
as time points after import.  I've also tried the 5dImage plugin to
successfully create a 5D image that represents the images as channels (1
time point, 2 channels), but this fails during import in OMERO.

After this I would like to manage tiles/sections (X/Y areas) taken
within one well (they are physically next to each other in the well so I
understand these are part of one 5D image?)


At this point I am not looking for a automated method.

Thanks,

Matt

Matt Smicker 
Research Investigator, Screening & Assay Sciences 
Lead Identification Technologies - BioS Department

sanofi-aventis
Bridgewater, NJ 08807-0800