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I'll throw one more possibility into the mix.  I used the ImageJ FFT 
bandpass filter, set at a high value of 100, and a lower value of 0 
to smooth out the background. --very impressive!.  I then set a 
threshold, and ran a watershed algorithm. --ended up with about 1900 
particles.  This seems higher than some have reported. I used a 
cutoff of 10 pixels^2, and that may have included some small specks.  
 Perhaps it is worth comparing. 

Joel

Date sent:	Wed, 6 Feb 2008 15:28:52 -0500
Send reply to:	Confocal Microscopy List 
<[log in to unmask]>
From:	Xinyu Zhao <[log in to unmask]>
Subject:	advice on counting objects
To:	[log in to unmask]

> Search the CONFOCAL archive at
> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
> 
> 
> 
> Dear listers,
> 
>  I was wondering if anybody could give me some advice on how to count the 
> objects in the image as attached.  They were cross sections of inner segments 
> of rods and the goal is to get the total number of them. 
> 
> It seemed a easy job at the beginning.  But after I started, I realizee that it 
> is tricky.  The intensity variation of the objects is big and the boundaries of 
> the cells are not clear.  
> 
> I am not much of an image processing person.  I was wondering if anybody could 
> give me some advice on how to proceed.
> 
> Thank you very much.
> 
> Xinyu Zhao
> Biomedical Imaging Core Lab
> B110 Richards Building
> School of Medicine
> University of Pennsylvania
> 37th and Spruce Street
> Philadelphia, PA 19104
> 


--
Joel B. Sheffield, Ph.D.
Biology Department, Temple University
1900 North 12th Street
Philadelphia, PA 19122
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(215) 204 8839, fax (215) 204 0486
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