http://imagej.273.s1.nabble.com/Index-of-hexagonality-SOLVED-tp5013442p5016036.html
neighborhood" instead of "voronoi". Voronoi would mostly ignore the rounded
then it should work.
> On Wednesday 30 Mar 2016 16:17:13 you wrote:
> > Hi Jan,
> >
> > Thanks very much for getting back to me. I noticed that the unites of
> length
> > for my images were in micron, and when I changed it to pixel I was able
> to
> > get the proper results.
> >
> > I'm hoping if you could help me figure out another technical issue with
> the
> > macro. I have some cells that have vertexes with 4 or more edges (see
> > attached images) and irregular shape, which is part of the phenotype I'm
> > trying to analyze. I feel like the macro is having difficulties picking
> > <
http://imagej.1557.x6.nabble.com/file/n5016032/raw.jpg>
> > <
http://imagej.1557.x6.nabble.com/file/n5016032/mask.jpg>
> > <
http://imagej.1557.x6.nabble.com/file/n5016032/color_code_pattern.jpg>
> up
> > those vertexes and gives me somewhat arbitrary results. For my control
> > samples most cells are hexagon so there is no problem.
> >
> > In the images the circle marks the vertex, and the arrow points to a cell
> > that I think has 4 neighbors...Let me know what you think.
>
> In that version of the discrete space tessellation, the cell has indeed
> more
> than 4 neigbours.
> You could run a closing (a minimum filter of radius size (let's say) 5,
> followed by a maximum filter of the same size). That should round the
> corners
> of the tiles and leave the larger boundaries (see attached, unfortunately
> that
> has some extra pixels due to the grey circle and arrow in the original).
> The
> larger the radius of the opening, the more it will round the corners.
>
> Cheers
>
> Gabriel
>
> --
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http://imagej.nih.gov/ij/list.html>
CEO: Dr. rer. nat. Jan Brocher