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Hi Manoj,

I am the developer of ImageSurfer. I just want to add more details
regard Tim's post. ImageSurfer has a filter designed specifically for
extracting tube-shape structures, like blood vessels and neurons. As
for the analysis, I don't know what you are looking for, but
ImageSurfer can locate and highlight intersections in the branches and
output the ratio of each type of branch (3-way, 4-way, and etc). The
tutorial is at http://cismm.cs.unc.edu/resources/tutorials/imagesurfer-2-tutorials/imagesurfer2-fibrin-network-structure-analysis/.

There are also more tutorials available at
http://cismm.cs.unc.edu/resources/tutorials/imagesurfer-2-tutorials/.

Go take a look and feel free to shoot me an email if you have any questions.

Thanks,
Joe

On Mon, Aug 6, 2012 at 11:23 AM, O'Brien III, E. Timothy
<[log in to unmask]> wrote:
> Dear Manoj-
>
> There are a lot of good packages out there, but I would also try the free  3D rendering software available from our center.  You can find it at either the specific site for Imagesurfer (http://imagesurfer.cs.unc.edu/downloads.html) or go to the CISMM website (https://cismm.cs.unc.edu).  There is even a nice procedure for setting up a pretty inexpensive but very fun stereo view system with glasses and such on the site: (https://cismm.cs.unc.edu/core-projects/visualization-and-analysis/setting-up-a-simple-stereo-system/).  We have several set up in our lab and I use mine regularly.
>
> The ImageSurfer program itself is constantly being updated.  It works on Macs and Windows at present, can output a movie of a rotating image, and can apply many different filters to the data.  Deconvolution is almost ready as well.  There is also a good user's guide.
>
> Anyway, having the virtue of being free, it is definitely worth looking at.  I use it to render stacks of labeled cells and to reconstruct fibrin clots in 3D.  There are examples on the websites.
>
> Hope it helps!
>
> Tim O'Brien
> Computer Integrated Systems for Microscopy and Manipulation
> UNC Chapel Hill, NC
>
>
>
>
>
>
>
> -----Original Message-----
> From: Confocal Microscopy List [mailto:[log in to unmask]] On Behalf Of Manoj Jaiswal
> Sent: Monday, August 06, 2012 9:23 AM
> To: [log in to unmask]
> Subject: Re: Suggestion for good 3D analysis software
>
> *****
> To join, leave or search the confocal microscopy listserv, go to:
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>
> Hello Alberto, John and George and other friends,
>
> Thank you so much for the reply. I will soon decide after the demo trial.
>
> Thanks,
> Manoj
>
> On Sun, Aug 5, 2012 at 5:40 AM, Manoj Jaiswal <[log in to unmask]>wrote:
>
>> Hello friends,
>> I need to buy a 3D quantification software to analyze data in large z-stack.
>> Stack is going to be complex where we need to visualize blood vessesl,
>> artery and neurons and astocytes.  I dont know which is the best
>> software available in the market. Any suggestion would be great.
>>
>> Thanks,
>> Manoj
>>