Re: Antwort: Re: 3D Display

Posted by GCH-2 on Mar 12, 2008; 5:40pm
URL: http://imagej.273.s1.nabble.com/3D-Display-tp3696908p3696913.html

Hi,

If I remember correctly, the problem with some AFM images is that  
they may be composed of several channels. If your images are ascii,  
512x512 pixels the File/Import/Text image... shuodl do the job.  
Somewhere I also have a macro (provided mostly by Wayne) that I used  
to open AFM  images (single or series within a folder) automatically.  
I can send it to you in a separate email if necessary.

Once you open the images you can use the Interactive 3D surface plot  
by Kai Uwe Barthel (http://rsb.info.nih.gov/ij/plugins/surface- 
plot-3d.html) to render and visualize the surface. It works great!

You can also use the SurfCharJ to characterize and describe the  
surface topography.
http://www.gcsca.net/IJ/SurfCharJ.html

I hope this helps,

Gary.
http://www.gcsca.net





On Mar 12, 2008, at 6:02 PM, Joachim Wesner wrote:

> Hi Luciano, what David is refering to is that "text image" will  
> take your
> single file and create a 2D image where intensity (grey) value  
> represent
> height (Step 1), starting from that you likely
> can use SurfaceJ to create a true 3D representation of your object(s).
> (Step 2)
>
> However, as I mentioned in that other post, if one considers a  
> simple fully
> convex closed sphere/cell, one will even in the simplest case get  
> TWO z
> values for each x and y inside the projection of that
> cell (upper and lower surface), the more folded the surface the more
> nonunique entries (x,y). Then text import will not work!? Is that  
> the case
> with your data?
>
> Mit freundlichen Grüßen / Best regards
>
> Joachim Wesner
>
>
>
>
>              David Hovis
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>                                         Re: 3D Display
>
>              12.03.2008 17:22
>
>
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> On Mar 12, 2008, at 12:16 PM, Luciano Silva wrote:
>
>> Dear Leon,
>> In our situation, we have the 3D coordinates in order to be plotted
>> aiming
>> future segmentation of 3D objects distributed on the surface. We are
>> not
>> looking for a plugin that is able to render 3D images using color
>> intensity.
>> Our data are already with X, Y, and Z directions of the surface. We
>> have
>> these data as a matrix X/Y of defined dimension and for which any
>> value is
>> the Z (height). In this way, your suggestion is not aimed to solve
>> this.
>> Thanks in advance,
>> Luciano
>
> I'm going to repeat myself:
>
> File -> Import -> Text Image...
>
> --David
>
>
>
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