Re: cell by cell local thickness

Posted by Eric BADEL-2 on Mar 16, 2009; 8:50am
URL: http://imagej.273.s1.nabble.com/cell-by-cell-local-thickness-tp3693294p3693296.html

Hi,
Thank you for this idea. It works. Actually, I worked on an another idea
and I still meet an issue.
I generated an image that represents only the boundaries of the cell.
The grey level values on this boundary represent the corresponding local
thickness. Nox, I need to get these values, cell by cell. That means
that the boundary line should be one ROI. Nevertheless, if I try to get
values of this ROI, ImageJ thinks that the ROI is the surface of the shape.
How, could I define only the boundary as an ROI (and get all the
corresponding grey level value) ?
Thank you
Eric


David Webster a écrit :

> Eric,
>
> I'm assuming that you want to get to each cell's image and then run your
> process on that cell alone. A way to do this 1)  is to thresholded a
> multicell image to get an image of cell silhouettes, 2) use Landini's
> BinaryLabel8 plugin (see plugins documentatiuon) to assign a unique label to
> each cell silhouette, 3) use setThreshold() and run("Convert to Mask") to
> pull out each cell's silhouette in turn, and 4) run your process on each of
> these silhouettes.
>
> Does this help, or am I missing the point?
>
> David Webster
> On Fri, Mar 13, 2009 at 6:39 AM, Eric BADEL <[hidden email]>wrote:
>
>  
>> Hi all,
>> I need to evaluate the cell wall thickness in a cellular material. I
>> already
>> use "distance map" and other very useful "Local thickness" plugin and I get
>> the map of local thickness.
>> Now I need to split the information and to evaluate the local thickness of
>> the wall of each cell. This mean I need to get all the values on the
>> skeleton that is linked to one cell (and do it for each cell).
>> I had the idea to use the skeleton image, to dilate the cell then make the
>> difference with the initial image in order to get the values on the
>> boundaries of the cell. But I do not know how to operate cell by cell.
>> Any other idea ?
>> Eric
>>
>>    

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