Re: Index of hexagonality?

Posted by Kenneth Sloan-2 on Jul 06, 2015; 11:16pm
URL: http://imagej.273.s1.nabble.com/Index-of-hexagonality-SOLVED-tp5013442p5013444.html

One thing that we do is to :

a) find the cell centers (usually manually, or at best semi-automatically)
b) compute a Voronoi Diagram (this usually looks VERY MUCH, but NOT IDENTICAL)
   to the cell boundaries
c) histogram the #of neighbors for each cell center (that is, the number of sides
   to the Voronoi Cell associated with that “site”

d) analyze such numbers as the % of cells with 6 neighbors.

This is always custom, and how you do each step depends on the images you have.

--
Kenneth Sloan
[hidden email]
Vision is the art of seeing what is invisible to others.

> On Jul 6, 2015, at 17:14 , Mr_Sonky <[hidden email]> wrote:
>
> Hi all,
>
> I'm looking at some endothelial cells which are meant to be hexagonal and
> tightly packed in nature. With stress and/or trauma, these cells exhbit
> polymorphism - they turn into polygons of varying types. My aim is to
> determine how many cells have lost their hexagon shapes in order to infere
> the severity of the insult. I've attached two samples. The first is simply
> the cellls. The second has a yellow box to highlight a Hexagon whilst the
> red box highlights a cell that has undergone transformation into a a
> different polygon (pentagon - in this instance).
>
> <http://imagej.1557.x6.nabble.com/file/n5013442/Endothelial_Cell.jpg>
>
> <http://imagej.1557.x6.nabble.com/file/n5013442/Endothelial_Cell_example.jpg>
>
> Any help is appreciated!
>
> NB I have looked at Gary Chinga's shape descriptor plugin and its not what
> I'm looking for =)
>
>
>
>
>
> --
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>
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