marker assisted watershed

[Fabrice Senger]

Hi there,

is there a procedure to do marker assisted segmentation using image J's
watershed function ?

Thank you very much,

Fabrice.

--
Senger Fabrice

[Gabriel Landini]

On Tuesday 03 April 2007 16:16:17 Senger Fabrice wrote:
> Hi there,
>
> is there a procedure to do marker assisted segmentation using image J's
> watershed function ?

IJ's Process>Binary>Watershed function is really "watershed separation" of
binary objects. To do a watershed transform, you need Daniel Sage's plugin.

Cheers,

Gabriel

[Michael Schmid]

Hi group,

since version 1.38d or so, Process>Binary>Find Maxima can do watershed
segmentation based on the gray value. There is some control of the
starting points via the "noise tolerance" parameter, but no manual
selection of the starting points.

Michael
__________________________________________________________________
On Wed, 4 Apr 2007 10:17:03 +0100 Gabriel Landini  wrote:

>On Tuesday 03 April 2007 16:16:17 Senger Fabrice wrote:
>> Hi there,
>>
>> is there a procedure to do marker assisted segmentation using image J's
>> watershed function ?
>
>IJ's Process>Binary>Watershed function is really "watershed separation" of
>binary objects. To do a watershed transform, you need Daniel Sage's plugin.
>
>Cheers,
>
>Gabriel
>

[Gabriel Landini]

On Wednesday 04 April 2007 19:05:18 Michael Schmid wrote:
> since version 1.38d or so, Process>Binary>Find Maxima can do watershed
> segmentation based on the gray value. There is some control of the
> starting points via the "noise tolerance" parameter, but no manual
> selection of the starting points.

Michael,
My fault! I forgot that one can also do watersahed using the Find Maxima
command. :-/

I think it would be very useful to expand the help pages regarding this
command for instance adding some images and more detail (if you have
registered in the wiki):

http://imagejdocu.tudor.lu/imagej-documentation-wiki/gui-commands/binary

I have a suggestion: the Find Maxima command has a "Light Background" option.
Would it be better if the procedure used instead the option set in
Process>Binary>Options>Black Background (so one has less options that seem
contradict each other). Does this make sense?

Regards,

Gabriel

[Noel BONNET]

Hi,
You could perhaps try "my" semi-automatic watershed-based segmentation
plug-in available at:
http://www.univ-reims.fr/INSERM514/ImageJ

Best regards.

Noel Bonnet