Posted by
Kevin Ryan-2 on
Oct 18, 2007; 9:04pm
URL: http://confocal-microscopy-list.275.s1.nabble.com/Mosaic-with-optical-sectoning-tp590526p590528.html
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocalImage-Pro, from Media Cybernetics, can assemble mosaics and stacks. Yes,
I'm biased; I write this software!
There are some limitations - due to Windows OS issues any _single_ frame
is limited to ~500MB (leaving room for operating on two images with an
output frame, plus the software, inside the ~1.6GB limit of Windows XP).
On a 64-bit system that goes up to ~700-900MB. If a single plane of your
mosaic is under that size limit Image-Pro can assemble your mosaics and
stacks for viewing.
If all individual frames are under the size limits Image-Pro will use
virtual memory to swap them in and out for operations. I've had >10GB of
images open at once, performing tracking on long time lapse series.
A mosaic with optical sectioning assembly would be a matter of:
(a) Tiling your mosaic images at a plane with good information, features
in all tiles of the mosaic,
(b) Applying that tiling to all planes, creating a series of mosaics,
and
(c) Viewing/measuring objects in your series of mosaics as a volume.
Note that Image-Pro can read most commonly available file formats. A
basic 3D viewer is included in the base Image-Pro; there is an
additional module for 3D object segmentation and analysis.
Kevin Ryan
Media Cybernetics, Inc.
> -----Original Message-----
> From: Confocal Microscopy List [mailto:
[hidden email]]
On
> Behalf Of Rachael Lim
> Sent: Wednesday, October 17, 2007 3:57 AM
> To:
[hidden email]
> Subject: Mosaic with optical sectoning
>
> Search the CONFOCAL archive at
>
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal>
> Hi! We are trying to run an experiment that requires image acquisition
of
> a
> very large area (a slice of rat brain; we use mosaic for this
purpose),
> along with optical sectioning.
>
> However, the software that we are currently using does not allow us to
> acquire both mosaic and optical sectioning simultaneously due to the
> extremely large file size produced (about 2GB), which cannot be
processed
> by
> the software (software limitation of file size is 200MB).
>
> I am wondering if it is possible for us to acquire the mosaic and
optical
> sectioning separately (i.e. mosaic for every plane of interest),
export
> out
> and compile them with another software. Does any of you have any
> suggestion
> of possible software that has the capability of compiling individual
> planes
> into a stack?
>
> Please advise. Thank you!
>
> Cheers,
> Rachael Lim