Dave,
Inverting would have been my first thought. If cytoplasm and membrane
are in separate channels, can you extract the holes and put them into
their own channel? Alternatively, use the Nearest projection mode
and play with opacities.
Regards,
Glen
On Oct 24, 2007, at 9:00 PM, IMAGEJ automatic digest system wrote:
> From: David Knecht-charter <
[hidden email]>
> Date: October 24, 2007 8:46:47 PM PDT (CA)
> Subject: 3D reconstruction of volume
>
>
> 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)
>
>
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