Voronoi Diagram

[Kornicks, Margot]

Hi All,
This is my first posting on the list serve.
Does anyone know of a plugin to ImageJ in which one can measure the
spatial relationship between nuclei?

Thanks,
Margot

[Brent Wood]

Hi Margot,

This is not directly relevant to your question, but we are working on an imageJ application which integrates ImageJ with a PostGIS database, and both the datanbase and other applications which interoperate with it can carry out spatial queries/analyses. This may be one way to achieve your goal.

Cheers,

  Brent Wood


Brent Wood
DBA/GIS consultant
NIWA, Wellington
New Zealand
>>> "Kornicks, Margot" <[hidden email]> 11/08/08 5:22 AM >>>
Hi All,
This is my first posting on the list serve.
Does anyone know of a plugin to ImageJ in which one can measure the
spatial relationship between nuclei?

Thanks,
Margot

NIWA is the trading name of the National Institute of Water & Atmospheric Research Ltd.

[karo03]

"spatial relationship" is a fairly general term. Maybe you should  
specify a bit more what you mean.

However, the exo-skeleton of your segmented nuclei is some sort of  
generelization of the Voronoi partition. Possibly the resulting region  
(per nucleus) is something you are looking for. At least I have used  
those regions as estimates for cells and measured them for "spatial  
relationship".

As far as I know graphs, describing the neighborhood (neighbored  
regions or Delaunay triangulations), are not implemented in ImageJ.

Regards
Karsten

Am 07.11.2008 um 17:11 schrieb Kornicks, Margot:

> Hi All,
> This is my first posting on the list serve.
> Does anyone know of a plugin to ImageJ in which one can measure the
> spatial relationship between nuclei?
>
> Thanks,
> Margot

[Gabriel Landini]

On Sunday 09 November 2008, Karsten Rodenacker wrote:

> As far as I know graphs, describing the neighborhood (neighbored
> regions or Delaunay triangulations), are not implemented in ImageJ.
>
> Regards
> Karsten
>
> Am 07.11.2008 um 17:11 schrieb Kornicks, Margot:
> > Hi All,
> > This is my first posting on the list serve.
> > Does anyone know of a plugin to ImageJ in which one can measure the
> > spatial relationship between nuclei?
> >
> > Thanks,
> > Margot

There is a Voronoi/Delaunay plugin written by Johannes Schindelin as a
response of a wishlist item. The plugin is referenced here:

http://imagejdocu.tudor.lu/doku.php?id=wishlist:completed:voronoi_diagram

Cheers

G.

[Jason Miller-2]

I think a student of line implemented an algorithm for the Blum Medial  
Axis of a binary image.  Applied to the soace minus the nuclei, this  
would segment the space into Voronoi regions.  I think.  Let me know  
if this would help you.



On Nov 9, 2008, at 6:29, Gabriel Landini <[hidden email]> wrote:

> On Sunday 09 November 2008, Karsten Rodenacker wrote:
>> As far as I know graphs, describing the neighborhood (neighbored
>> regions or Delaunay triangulations), are not implemented in ImageJ.
>>
>> Regards
>> Karsten
>>
>> Am 07.11.2008 um 17:11 schrieb Kornicks, Margot:
>>> Hi All,
>>> This is my first posting on the list serve.
>>> Does anyone know of a plugin to ImageJ in which one can measure the
>>> spatial relationship between nuclei?
>>>
>>> Thanks,
>>> Margot
>
>
> There is a Voronoi/Delaunay plugin written by Johannes Schindelin as a
> response of a wishlist item. The plugin is referenced here:
>
> http://imagejdocu.tudor.lu/doku.php?id=wishlist:completed:voronoi_diagram
>
> Cheers
>
> G.

[dscho]

Hi,

On Sun, 9 Nov 2008, Gabriel Landini wrote:

> On Sunday 09 November 2008, Karsten Rodenacker wrote:
> > As far as I know graphs, describing the neighborhood (neighbored
> > regions or Delaunay triangulations), are not implemented in ImageJ.
> >
> > Am 07.11.2008 um 17:11 schrieb Kornicks, Margot:
> > > This is my first posting on the list serve. Does anyone know of a
> > > plugin to ImageJ in which one can measure the spatial relationship
> > > between nuclei?
>
> There is a Voronoi/Delaunay plugin written by Johannes Schindelin as a
> response of a wishlist item. The plugin is referenced here:
>
> http://imagejdocu.tudor.lu/doku.php?id=wishlist:completed:voronoi_diagram

Indeed.  And IIRC I also implemented a mode that sets the current
selection instead of drawing the diagram (destructively) into the image.

Should you require any other mode, let me know; if it is easy to
implement, I will do that in an instant.

Ciao,
Dscho

[Kornicks, Margot]

Karsten,
What you describe, is exactly what I am after. How can I use these regions to measure the
spatial relationships between the cells?
Margot

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]]On Behalf Of
Karsten Rodenacker
Sent: Sunday, November 09, 2008 6:47 AM
To: [hidden email]
Subject: Re: Voronoi Diagram


"spatial relationship" is a fairly general term. Maybe you should  
specify a bit more what you mean.

However, the exo-skeleton of your segmented nuclei is some sort of  
generelization of the Voronoi partition. Possibly the resulting region  
(per nucleus) is something you are looking for. At least I have used  
those regions as estimates for cells and measured them for "spatial  
relationship".

As far as I know graphs, describing the neighborhood (neighbored  
regions or Delaunay triangulations), are not implemented in ImageJ.

Regards
Karsten

Am 07.11.2008 um 17:11 schrieb Kornicks, Margot:

> Hi All,
> This is my first posting on the list serve.
> Does anyone know of a plugin to ImageJ in which one can measure the
> spatial relationship between nuclei?
>
> Thanks,
> Margot