Question on automated image analysis of tissue slices

[Walter Wolf]

Dear Colleagues:

Could those of you who have used or are using ImageJ to automate tissue
analysis please share that information with me? A commercial outfit is
offering such a service, and I am trying to determine possible
alternatives in order to share such information with members of the USC
Biomedical Imaging Initiative.

Thank you

--
Professor Walter Wolf, Ph.D.
Distinguished Professor of Pharmaceutical Sciences
Director, Pharmacokinetic Imaging Program
Department of Pharmaceutical Sciences, School of Pharmacy
Chair, Biomedical Imaging Science Initiative
University of Southern California
1985 Zonal Ave., Los Angeles, CA 90089-9121
E-Mail: [hidden email]
Telephone: [phone]
Fax: [phone]
http://www.usc.edu/research/initiatives/bisi/
http://www.macnis.org/
http://www.usc.edu/schools/pharmacy/faculty_directory/detail.php?id=59

[Ignacio Arganda-Carreras]

Dear Walter,

To work with serial sections of any type, you should give a try to TrakEM2:

http://www.ini.uzh.ch/~acardona/trakem2.html

It includes methods for stitching, registering, segmenting, rendering...

ignacio

On Wed, Sep 30, 2009 at 2:54 AM, Prof. Walter Wolf <[hidden email]> wrote:

> Dear Colleagues:
>
> Could those of you who have used or are using ImageJ to automate tissue
> analysis please share that information with me? A commercial outfit is
> offering such a service, and I am trying to determine possible alternatives
> in order to share such information with members of the USC Biomedical
> Imaging Initiative.
>
> Thank you
>
> --
> Professor Walter Wolf, Ph.D. Distinguished Professor of Pharmaceutical
> Sciences
> Director, Pharmacokinetic Imaging Program
> Department of Pharmaceutical Sciences, School of Pharmacy
> Chair, Biomedical Imaging Science Initiative
> University of Southern California 1985 Zonal Ave., Los Angeles, CA
> 90089-9121
> E-Mail: [hidden email]
> Telephone: [phone]
> Fax: [phone]
> http://www.usc.edu/research/initiatives/bisi/
> http://www.macnis.org/
> http://www.usc.edu/schools/pharmacy/faculty_directory/detail.php?id=59
>

--
Ignacio Arganda-Carreras, Ph.D.
Institute of Neuroinformatics
Uni/ETH Zurich
Winterthurerstrasse 190
Bau 55
Zurich 8057
[phone]

Website: http://bioweb.cnb.csic.es/~iarganda/

[Gabriel Landini]

On Wednesday 30 September 2009  09:19:38 Prof. Walter Wolf wrote:
> Could those of you who have used or are using ImageJ to automate tissue
> analysis please share that information with me? A commercial outfit is
> offering such a service, and I am trying to determine possible
> alternatives in order to share such information with members of the USC
> Biomedical Imaging Initiative.

"Automated analysis of tissue slices" means 1000 different things.
What does exactly the "analysis" part consist of?

Regards

G.