Fwd: 3D volume rendering and measurement

[Daniel James White]

Hi Joan,

try these 2 open source freeware softwares

http://www.bioimagexd.net  BioImageXD
http://pacific.mpi-cbg.de                FIJI -  is just ImageJ (Batteries Included  
- and with a working 3D viewer plugin)

i can help you with both!

cheers

Dan


Begin forwarded message:

> Date:    Tue, 15 Sep 2009 13:25:18 +0800
> From:    Joan Sim <[hidden email]>
> Subject: 3D volume rendering and measurement
>
> --000e0cd5f674108fc004739702d9
> Content-Type: text/plain; charset=ISO-8859-1
>
> Dear all,
>
> I am completely new to image analysis from confocal microscopy and I  
> would
> like to seek advices about which softwares to use for 3D volume  
> rendering
> and calculation of the volume after obtaining Z-stacks of  
> immunostained
> Drosophila larvae brains. I briefly know that ImageJ (free) and Amira
> (expensive) are some of the available softwares, but can ImageJ  
> perform 3D
> volume rendering and calculation?
>
> I would greatly appreciate any advices given. Thank you!
>
> Best regards,
> Joan, PhD student
> Singapore

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
http://pacific.mpi-cbg.de                                                                                        FIJI -  is just ImageJ (Batteries  
Included)
http://www.chalkie.org.uk                                                                                        Dan's Homepages
https://info.med.tu-dresden.de/MTZimaging/index.php/Main_Page 
Dresden Imaging Facility Network
dan (at) chalkie.org.uk
( white (at) mpi-cbg.de )

[Knecht, David]

Am I right that we still have nothing in ImageJ or Fiji that will render z-time data sets?  Dave

On Sep 16, 2009, at 7:37 AM, Daniel James White wrote:

Hi Joan,

try these 2 open source freeware softwares

http://www.bioimagexd.net BioImageXD
http://pacific.mpi-cbg.de FIJI -  is just ImageJ (Batteries Included  
- and with a working 3D viewer plugin)

i can help you with both!

cheers

Dan


Begin forwarded message:

Date:    Tue, 15 Sep 2009 13:25:18 +0800

From:    Joan Sim <[hidden email]>

Subject: 3D volume rendering and measurement

--000e0cd5f674108fc004739702d9

Content-Type: text/plain; charset=ISO-8859-1

Dear all,

I am completely new to image analysis from confocal microscopy and I  

would

like to seek advices about which softwares to use for 3D volume  

rendering

and calculation of the volume after obtaining Z-stacks of  

immunostained

Drosophila larvae brains. I briefly know that ImageJ (free) and Amira

(expensive) are some of the available softwares, but can ImageJ  

perform 3D

volume rendering and calculation?

I would greatly appreciate any advices given. Thank you!

Best regards,

Joan, PhD student

Singapore

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
http://pacific.mpi-cbg.de FIJI -  is just ImageJ (Batteries  
Included)
http://www.chalkie.org.uk Dan's Homepages
https://info.med.tu-dresden.de/MTZimaging/index.php/Main_Page
Dresden Imaging Facility Network
dan (at) chalkie.org.uk
( white (at) mpi-cbg.de )

Dr. David Knecht    

Department of Molecular and Cell Biology

Co-head Flow Cytometry and Confocal Microscopy Facility

U-3125

91 N. Eagleville Rd.

University of Connecticut

Storrs, CT 06269

860-486-2200

860-486-4331 (fax)

[Grace Chojnowski]

I am sending this email on behalf of a colleague here at QIMR :

 

“ I am wondering if you know of any local courses or workshops on fluorescence in situ hybridisation? “

 

If you have any details please let me or Amity know.

 

[hidden email]

Amity Roberts

PhD Scholar

Whitelaw Laboratory

Queensland Institute of Medical Research

Ph:  [phone]

 

 

 Grace Chojnowski
 Flow Cytometry and Confocal Microscopy Laboratory Manager
 Queensland Institute of Medical Research
 Brisbane, QLD, AUSTRALIA
 Email: [hidden email]
 Telephone [phone].     Mob: [phone]
 FAX [phone]

 

http://www.qimr.edu.au/research/services/flowcytom/index.html

 

 

[Jason Swedlow]

Hi Amity:

See:

http://meetings.cshl.edu/courses/c-situ09.shtml

I used to teach in the course and it was very good, with lots of hands on experience.

Cheers,

Jason

On Thu, Sep 24, 2009 at 5:49 AM, Grace Chojnowski <[hidden email]> wrote:

I am sending this email on behalf of a colleague here at QIMR :

 

“ I am wondering if you know of any local courses or workshops on fluorescence in situ hybridisation? “

 

If you have any details please let me or Amity know.

 

[hidden email]

Amity Roberts

PhD Scholar

Whitelaw Laboratory

Queensland Institute of Medical Research

Ph:  [phone]

 

 

 Grace Chojnowski
 Flow Cytometry and Confocal Microscopy Laboratory Manager
 Queensland Institute of Medical Research
 Brisbane, QLD, AUSTRALIA
 Email: [hidden email]
 Telephone [phone].     Mob: [phone]
 FAX [phone]

 

http://www.qimr.edu.au/research/services/flowcytom/index.html

 

 

--
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phone [phone]
Intl phone:  [phone]
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