[ome-users] displaying histogram to adjust the intensity

[Josh Moore]

Hi Thomas,

On Thu, Dec 17, 2015 at 1:14 PM, Thomas Julou
<thomas.julou at normalesup.org> wrote:
> Hi Will,
...
> Thanks for spelling out the challenges…
> Still, can’t you retrieve histogram values from the server along with the
> image (or even in the header of the 8-bit image)?
> ...

The images are typically retrieved as packed ints and so adding this
amounts to an API change. However it's done (a separate method or in
the same result), it's an addition we've been wanting to make but
haven't yet had the time for.

> ...
> I’m fine with that for the moment. But I realize this is very important to
> some people… To this matter again, computing the histogram on the server
> side seems to make more sense.
> ...

Definitely. I've filed https://trello.com/c/5SjwyaM4/112-histogram-api
to capture your feedback. (Feel free to comment further!) If you look
at http://blog.openmicroscopy.org/future-plans/community/2015/12/09/omero-status/
this would fall for us under the general banner of "rendering" and so
would likely follow our next effort on regions of interest.

> Thanks, I heavily rely on these features indeed!
> btw, I would like to raise again the saturation feature that you skipped in
> your answer. As soon as there are some bright pixels, e.g. dye clump or
> camera noise, this is really needed…

Similarly I've filed https://trello.com/c/QYUThW7D/113-saturation,
though not a recent to cease any discussion.

> Best,
> Thomas

Cheers,
~Josh.



> On 16 Dec 2015, at 12:44, Thomas Julou <thomas.julou at normalesup.org> wrote:
>
> Hello,
>
> I finally start using omero more extensively. One thing I really lack
> compared to other tools (in particular fiji, icy and micromanager) is the
> possibility to easily view the intensity histogram of an image. As far as I
> understand it?s possible only in omero.insight and requires to create a roi
> for the entire image, correct?
>
> This is particularly needed to adjust the contrast of a dataset and/or to
> compare different experimental conditions.
> I?d love to see the histogram displayed in the preview pane of omero web
> (e.g. one coloured line per displayed channel, with a checkbox for log
> y-axis). Along the same line having a field to set saturation next to the
> min/max button would be really convenient (similar to the ignore field in
> micromanager, or to the Auto button in the contrast window of imagej).
>
> Please let me know if these features are already implemented and I wasn?t
> able to find them. Otherwise, I?d really like to know whether this is on
> your roadmap. Best regards,