3D segmentation in ImageJ

[Kaustav Nandy]

Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal

Hello List Users,

This might be a bit off topic. I am new to ImageJ and would like to get
some information about the software. I am planning to do some 3D
segmentation using ImageJ. I looked into the plugins page, but couldn't
find anything that would help me in doing the job. I have z-stacks of
mouse embryos and would like to do the segmentation of individual
nuclei. It would be very helpful for me if someone can provide me some
information about any tools that available in ImageJ to do the
segmentation in 3D.

Thanks in advance.

Kaustav.

[McDonald, David L]

Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal

Hi Kaustav,

Have you tried the 3D Objects Counter plugin
(http://rsb.info.nih.gov/ij/plugins/track/objects.html)?

Dave

At 08:26 AM 3/11/2008, you wrote:

>Hello List Users,
>
>This might be a bit off topic. I am new to ImageJ and would like to
>get some information about the software. I am planning to do some 3D
>segmentation using ImageJ. I looked into the plugins page, but
>couldn't find anything that would help me in doing the job. I have
>z-stacks of mouse embryos and would like to do the segmentation of
>individual nuclei. It would be very helpful for me if someone can
>provide me some information about any tools that available in ImageJ
>to do the segmentation in 3D.
>
>Thanks in advance.
>
>Kaustav.

Dave McDonald
Scientific Imaging Lab
Fred Hutchinson Cancer Research Center
1100 Fairview Avenue North, DE-512
Seattle, WA 98109
206-667-4205
http://www.fhcrc.org

[Aki Hoji-2]

Search the CONFOCAL archive at http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal

The new web address of 3D Objects Counter Plugin  is 3D Objects Counter

Aki Hoji, Ph.D

Rm 37-068 CHS

650 Charles E. Young Dr. So.

UCLA Medical Center

Los Angeles, CA 90095

email: [hidden email]

    [hidden email]

On Mar 11, 2008, at 12:29 PM, Dave McDonald wrote:

Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal

Hi Kaustav,

Have you tried the 3D Objects Counter plugin (http://rsb.info.nih.gov/ij/plugins/track/objects.html)?

Dave

At 08:26 AM 3/11/2008, you wrote:

Hello List Users,

This might be a bit off topic. I am new to ImageJ and would like to get some information about the software. I am planning to do some 3D segmentation using ImageJ. I looked into the plugins page, but couldn't find anything that would help me in doing the job. I have z-stacks of mouse embryos and would like to do the segmentation of individual nuclei. It would be very helpful for me if someone can provide me some information about any tools that available in ImageJ to do the segmentation in 3D.

Thanks in advance.

Kaustav.

Dave McDonald
Scientific Imaging Lab
Fred Hutchinson Cancer Research Center
1100 Fairview Avenue North, DE-512
Seattle, WA 98109
206-667-4205
http://www.fhcrc.org