Posted by
NeLaS on
Apr 13, 2007; 3:58pm
URL: http://imagej.273.s1.nabble.com/StereoView-after-StackFocuser-tp3699767p3699769.html
Hi Gabriel!
Maybe you are seeing the results of different methods to decide what is on
> focus when you use semi-transparent objects.
>
> These plugins would work perfectly on stacks of images of opaque objects.
> The
> problem with semi-transparent objects (like those cells) is that they can
> be
> on focus at several places in the z plane. The plugins try to maximise
> some
> focus function in the z direction. Depending on the implementation this
> may
> be found at different places.
Hum, interesting point!
Just curious, which of the topology maps give you the best focused result?
>
That's a difficult question, but I think the stack focuser plugin is giving
better ones. If I use kernel size of 3, the focused image turns out
"average" because of the abundance of "noise", final image is grainy. If I
use kernels bigger than 100 I get really nice resolved focus in most areas
of the image, but the kernel patches appear explicitly (while using smaller
kernels these patches are so small they look like noise).
The stack focuser seems to interpret the stack's focus information as I
would expect, but EDF apparently mix the onfocus information (maybe because
of the opacity of images?). I have tried other configurations for EDF, on
the advanced mode, but the resulting images were not too different regarding
the topology.
Can you upload the stack for testing?
sure! the .zip can be downloaded
here<
http://filexoom.com/files/12783/2cell.zip>.
It contains the stack (8bit), a focused image processed with k=3 and another
with k=150 (StackFocuser), and the output image from Extended Depth of Field
(Easy mode -> Speed/quality "high").
thanks!
bruno
On 4/13/07, Gabriel Landini <
[hidden email]> wrote:
>
> On Friday 13 April 2007 02:23:44 NeLaS wrote:
> > doing the sequence:
> > >Open image sequence
> > >Run Extended Depth of Field Plugin (EDF)
> > >Run Anaglyph plugin (G.Landini) and mark to generate a stereo image
> >
> > However, the topology map created by EDF does not seem to reflect the
> > stack's resulting topology, but only the single output image's topology.
>
> Maybe you are seeing the results of different methods to decide what is on
> focus when you use semi-transparent objects.
>
> These plugins would work perfectly on stacks of images of opaque objects.
> The
> problem with semi-transparent objects (like those cells) is that they can
> be
> on focus at several places in the z plane. The plugins try to maximise
> some
> focus function in the z direction. Depending on the implementation this
> may
> be found at different places.
>
> Just curious, which of the topology maps give you the best focused result?
>
> Can you upload the stack for testing?
>
> > I tried to use Anaglyph plugin with the Height Map, but with no success!
> > The resulting image is absolutely distorted. I assigned the output and
> > heightmap to 32bit and 8bit, but it made no difference.
>
> > ps: sorry for my ignorance, but is heightmap = topology ?
> Yes, although the heightmap is not guaranteed to be meaningful
> (measure-wise)
> unless your stacks are all taken at the same step depth.
>
> Regards
>
> G.
>
--
Bruno C. Vellutini
organelas.com
Centro de Biologia Marinha (CEBIMar)
Universidade de São Paulo
Av. Manoel H. do Rego km 131,5
11600-000 São Sebastião, SP, Brasil
http://www.usp.br/cbm/