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Re: 3D reconstruction of volume

Posted by vbindokas on Oct 25, 2007; 12:56pm
URL: http://imagej.273.s1.nabble.com/3D-reconstruction-of-volume-tp3698102p3698103.html

David,
You could draw a ROI ( wedge) from the interior outward and clear the
ROI (option to do so for entire stack). This way it looks like a cut pie
upon 3D projection.  You could play with opacity and surface/interior
weights to emphasize the inner features, though I've not had great
success this way. You should also try the Volume Viewer/3D Slicer and/or
VolumeJ plugins that can perform this type of rendering option (ROI not
required). Animating a series of XZ or YZ reslice projections would show
what you want to show, too.


David Knecht-charter wrote:

> We are trying to make volume projections of some confocal z slices
> through a cell.  There is cytoplasmic label and some concentrated
> membrane labeling.  There are also large vacuoles and the nucleus
> where there is no label.  Is there any way to get those black holes in
> the cytoplasm to show up as defined structures in the projections?  
> They are obscured by the cytoplasmic label in a standard projection
> because they are of much lower intensity.  If you try to project just
> hte lower intensity values, they are obscured by the fact that the
> extracellular background is equally black.  Any ideas?  Thanks- Dave
>
>
> 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)

--
__

Vytas Bindokas, Ph.D.
Research Assoc. / Assoc. Prof.,
Director, BSD Light Microscopy Core Facility
Dept Neurobiol Pharmacol Physiol MC0926
947 E 58th Street
The University of Chicago
Chicago IL 60637
Room Abbott 120
773-702-4875

email [hidden email]
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