http://imagej.273.s1.nabble.com/StereoView-after-StackFocuser-tp3699767p3699770.html
Kind of obvious since Stack Focuser uses Sobel... :-)
>
> 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/>
Bruno C. Vellutini
Av. Manoel H. do Rego km 131,5