Hi Joan,
If you are interested in Commerical Software for 3D rendering and
measurement of confocal immunostained z-stacks you can also check out Image-Pro
Plus 3D from Media Cybernetics.
http://www.mediacy.com/index.aspx?page=IP_3D_analysis
You can separately view, threshold, count, and measure channels
of fluorescence and then overlay them, change transparency, calculate
intensities, and create movies of your renderings to share later.
I work and train with the product every day and I’ve never
seen anything quite as robust on the market. There are many great free packages
available to you as others have mentioned, but if you’re interested in
something with a Tech Support line to call and online and in-person training
classes, I would definitely take a look at Image-Pro Plus 3D.
I hope this is helpful.
Regards,
Nick Beavers
Media Cybernetics, Inc.
phone: 301-495-3305
web: www.mediacy.com
email: [hidden email]
From: Confocal Microscopy List
[mailto:[hidden email]] On Behalf Of Tim O'Brien
Sent: Wednesday, September 16, 2009 5:17 PM
To: [hidden email]
Subject: Re: 3D volume rendering and measurement
One program that you might want
to try is ImageSurfer. It is free, which is a plus, and can do 3D
rendering as an isosurface or volume rendering, and several color datasets can
be shown together. It has a really convenient slice extractor tool that
lets you measure relationships between the datasets. (It cannot measure
volumes, per se, yet). It is available from our CISMM website at
UNC. We are an NIBIB resource, so are interested in providing tools that
Biologists (and other imaging scientists) will actually use. Download the
program from http://cismm.cs.unc.edu/downloads/.
There are also a number of other free tools for analyzing data from
microscopy. The software is constantly being updated vis a vis feedback
from users. It is good to have a good graphics card and a fair amount of
ram memory when using it.
Thanks,
Tim
firstname Joan Sim wrote:
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