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References: <[log in to unmask]>
            <002001c08cf7$054e4440$0fd979c3@70lw10j>
Message-ID:  <v04011707b6a0cc7f6031@[137.187.230.154]>
Date:         Fri, 2 Feb 2001 13:46:51 -0800
Reply-To:     ImageJ Interest Group <[log in to unmask]>
Sender:       ImageJ Interest Group <[log in to unmask]>
From:         Wayne Rasband <[log in to unmask]>
Subject:      Re: volume quantification of 3D rendered images
In-Reply-To:  <[log in to unmask]>

I am working on a plugin, similar to Glen McDonald's Cavalieri macros and
John Russ' stereology plugin (both for NIH Image), that will allow the size
of volumes in a stack to be estimated by counting points on grids.

Here are some URLs with information:

Cavalieri Macros for NIH Image:
ftp://rsbweb.nih.gov/pub/nih-image/user-macros/
Stereology plugin for NIH Image:
ftp://rsbweb.nih.gov/pub/nih-image/plug-ins/Ster__DropIns.hqx
Introduction to Stereology:
http://www.liv.ac.uk/fetoxpath/quantoxpath/stereol.htm
Stereologer : http://www.stereologer.com/Stereo_Exec.html
3D counting: http://nervenet.org/papers/3DCounting.html
MCID Stereology Module: http://imaging.brocku.ca/products/stereology.htm
"Unbiased Stereology" : http://www.2spi.com/catalog/books/book113.html
"Practical Stereology": http://search.rapra.net/publications/en/pt61an.asp

-wayne


>Dr. Abramoff and ImageJ list readers,
>
>I am sorry my question wasn't specific enough. I am growing tumors and
>treating
>them in an artificial skin model. The malignant cells are visualized with GFP
>using confocal microscopy. I have been successful at rendering 3D images of
>these tumors with ImageJ, but would like to calculate the volume associated
>with the rendered image. Each tumor has a very different shape, so I cannot
>just use a mathematical forumula for the volume of a sphere, etc. for all of
>the samples. I am wondering whether ImageJ or another program can be used to
>determine the actual volume (cubic microns) of an image it has rendered from a
>stack of confocal images of the sample. From the confocal data, I know the xyz
>diameters, however, given the complexity of the shape, any formulas for
>standard 3D objects would be innacurate representations of the volume. Thank
>you for your consideration of this problem.

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