Re: Automatic Cell Counting

Posted by Barron, Francie on Jul 06, 2010; 4:07pm
URL: http://imagej.273.s1.nabble.com/Re-Automatic-Cell-Counting-tp3687675p3687678.html

Hi Dan,

What is the email I can send the information to?

Thanks,
~Francie

NOTE NEW EMAIL ADDRESS:  [hidden email]

***************************************************************

Francie Barron (Hyndman), Graduate Student
Cells Biology, Stem Cells, and Development Program
Dr. David Clouthier lab, Craniofacial Biology

For Correspondence:
University of Colorado, Health Sciences Center
Department of Craniofacial Biology
Mailstop 8120
P.O. Box 6511
Aurora, CO 80045

For Deliveries:
University of Colorado Denver Health Sciences Center
Department of Craniofacial Biology
Building RC1 South, Room 11400B
12801 East 17th Avenue
Aurora, Co 80010

Lab: 303-724-4566
Fax: [phone]

*****************************************************************

________________________________________
From: ImageJ Interest Group [[hidden email]] On Behalf Of Daniel James White [[hidden email]]
Sent: Friday, July 02, 2010 3:50 AM
To: [hidden email]
Subject: Re: Automatic Cell Counting

Hi Francie,

send me a sample image and i will make some suggestions....touching nuclei are often very hard to get.

A watershed method might work, see watershed here.
http://rsbweb.nih.gov/ij/docs/menus/process.html#binary



cheers

Dan



On Jul 2, 2010, at 6:00 AM, IMAGEJ automatic digest system wrote:

>
> Date:    Wed, 30 Jun 2010 22:51:15 -0600
> From:    "Barron, Francie" <[hidden email]>
> Subject: Re: Automatic Cell Counting
>
> Hi,
>
> I'm new to this program, so hope to receive some help.
>
> I have paraffin sections through a mouse E11.5 mandibular arch that I have =
> stained for proliferation and cell death.  I wanted to count the total numb=
> er of cells (via DAPI) and compare that to cell proliferation positive and =
> cell death positive cells in both control and mutant (I have them stored as=
> 16-bit RGB as well as 8-bit).  As of now, I've been using the manual cell =
> counter plug-in through Fuji, but would like a way to specify an ROI and au=
> tomate this process.  I have downloaded and tried the UCSB ITCN plugin for =
> automation, but it was not able to count cells closely packed together desp=
> ite a low threshold.  If anyone can suggest a way to automate this (a new p=
> lugin or one contained into ImageJ), or help with the plugins that I have t=
> hat would be great.
>
> Thanks so much!!
> ~Francie
>

Dr. Daniel James White BSc. (Hons.) PhD
Senior Microscopist / Image Processing and Analysis
Light Microscopy Facility
Max Planck Institute of Molecular Cell Biology and Genetics
Pfotenhauerstrasse 108
01307 DRESDEN
Germany


New Mobile Number!!!

[phone] (German Mobile)
+49  (0)351 210 2627 (Work phone at MPI-CBG)
+49  (0)351 210 1078 (Fax MPI-CBG LMF)

http://www.bioimagexd.net
http://www.chalkie.org.uk
[hidden email]
( [hidden email] )

Dr. Daniel James White BSc. (Hons.) PhD
Senior Microscopist / Image Visualisation, Processing and Analysis
Light Microscopy and Image Processing Facilities
Max Planck Institute of Molecular Cell Biology and Genetics
Pfotenhauerstrasse 108
01307 DRESDEN
Germany

[phone] (German Mobile)
[phone] (Work phone at MPI-CBG)
[phone] (Fax MPI-CBG LMF)

http://www.bioimagexd.net       BioImageXD
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