ImagePro>Re: 3D analysis
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ImagePro>Re: 3D analysis
Hi Anil,
To further a bit on Chris' point - if you are looking to do a kernel
operation (2D) on a 3D stack of images, then, this is possible with the
sequence function in Image-Pro Plus. That is, you can apply an n x n filter
kernel to all images in a 3D stack. Each filter operation would be performed
on each image in the stack and would not take into consideration the
previous of following frame. If this is your goal, then, yes, Image-Pro v4.5
can perform this function. If however, your computations involve
considerations of neighboring frames, then Chris' comments regarding future
feature considerations would be valid.
I hope this helps.
Regards,
Chandresh
----------------------------------------------
Chandresh Trivedi
Media Cybernetics Inc., Asia Pacific
Keypoint Office Tower, 371 Beach Road, #02-03
Singapore 199597
Tel: +65.2454965, Fax: +65.2454967
ctrivedi@mediacy.com, http://www.mediacy.com
----------------------------------------------
-----Original Message-----
From: Image-Pro Plus Users Email List
[mailto:imagepro-users@lists.mediacy.com]On Behalf Of Chris Tully
Sent: Tuesday, November 13, 2001 11:28 PM
To: Image-Pro Plus Users Email List
Subject: ImagePro>Re: 3D analysis
Anil,
The current set of 3D tools was limited by the time available for
development before our self imposed release date, and more importantly by a
desire to put a useful tool on the market and get user feed back. We will
be looking for any and all suggestions that user can give us as we continue
development on these products.
Unfortunately, we do not currently support any 3D operations other than the
ones included in Sharp Stack (deconvolution) and 3D Constructor
(visualization). As development progresses, we will add additional 3D data
manipulation and analysis capabilities.
Chris Tully
Senior Technical Services Engineer and Quality Assurance Analyst
Media Cybernetics, Inc. "From Images to Answers"
8484 Georgia Avenue, Suite 200
Silver Spring, MD 20910
Tel: +1 (301) 495-3305 ext. 3 Fax: +1 (301) 495-5964
E-mail: TechSupport@mediacy.com
Media Cybernetics Website: www.mediacy.com
Media Cybernetics Solutions Zone: www.solutions-zone.com
-----Original Message-----
From: Image-Pro Plus Users Email List
[mailto:imagepro-users@lists.mediacy.com]On Behalf Of Tarachandani, Anil
Sent: Wednesday, November 07, 2001 8:54 AM
To: Image-Pro Plus Users Email List
Subject: ImagePro>3D analysis
Mark:
My question was directed more at doing COMPUTATIONS in 3D. Most of the
computations that Mediacy offers is the sharpening or deblurring routines. I
was more interested in other kernel based routines (currently done in 2D)
and hoping mediacy kernel calculations tools would work in three dimensions.
Thanks.
Anil
From: "Mark A. Nicklas" <Mark@mediacy.com>
Subject: ImagePro>Re: 3D processing.
Date: Tue, 6 Nov 2001 15:18:53 -0500
Message-ID: <002c01c16700$415c3f30$930a0a0a@oknowwhat>
Content-Type: text/plain;
charset="iso-8859-1"
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Hello Anil,
Here is an excerpt out of an email that Dean Sequera our Vice
President, Marketing & Product Development sent out a few days ago about
some of our new products that do what you are asking about.
Introduction of Three New Image-Pro Plus Plug-Ins
Media Cybernetics proudly announces three completely new modules for
Image-Pro Plus to enable 6D and 7D acquisition. AFA (Advanced Fluorescence
Acquisition) automates image acquisition across numerous dimensions and
manages the information sets. SharpStack integrates the most popular
deconvolution algorithms with a simple user interface into Image-Pro Plus
4.5. And 3D Constructor offers extensive qualitative tools for rendering
Z-stacks to expose relationships amongst and within objects.
AFA
AFA is a major enhancement to Scope-Pro. The user must have Scope-Pro
installed in order to enjoy the benefits of AFA. You can manage all
combinations of acquisition modes: time, channel (most often used with
fluorescence wavelengths but other modes as well), focus (Z-stack), and
stage position (with well and user-defined settings). The Set Manager allows
you to organize, view and extract any single mode sequence from the set. It
also allows X/Y tiling, essentially making 7D analysis possible. Each tile
position is separately addressable. It has a logical workflow with a tab
dialog interface. It uses the recent EDF (Extended Depth of Field) features
to aid in optimization of Z-stack and focus. A convenient preview mode lets
the user see if things look good before the run is started or lets the user
take a peek while the run is active.
SharpStack
Obtaining clear images from a Z-stack is a challenge for microscopists. The
SharpStack add-on module for Image-Pro Plus extracts clear, sharp images
from a stack of hazy planes. Unlike other deconvolution solutions,
SharpStack integrates seamlessly with image capture, 2D processing, analysis
and reporting within the worlds most popular image analysis software,
Image-Pro Plus. Nearest neighbor, no neighbor and inverse algorithm
functions are employed to sharpen one or all planes from a Z-stack.
3D Constructor
3D reconstruction and visualization may expose hidden relationships within
and amongst objects. Like SharpStack the visualization workspace is
integrated into the Image-Pro Plus environment. Z-stacks collected via
Image-Pro modules Scope-Pro and AFA or loaded from stored files (including
all major confocal formats) may be rendered.
Major features:
7 Rotate in X, Y and Z dimensions
7 Zoom
7 Change background color
7 Wireframe rendering
7 View with numerous isosurface rendering options
o Intensity assignment
o Opaque
o Transparency level
o Lighting effects
7 Animate by selecting rotation angles
7 Select volume of interest
7 Numerous stereo modes
7 Display orthogonal and oblique slices
8
You can find more info on these products at :
http://www.mediacy.com/afa.htm
http://www.mediacy.com/sharpstack.htm
http://www.mediacy.com/3dconstructor.htm
For more information please contact us at Info@mediacy.com .
Regards,
Mark
-------------------------------------
Mark A. Nicklas
Technical Services Engineer/Quality Assurance Analyst
Media Cybernetics, Inc. "From Images to Answers"
-----Original Message-----
From: Image-Pro Plus Users Email List
[mailto:imagepro-users@lists.mediacy.com] On Behalf Of Tarachandani, Anil
Sent: Tuesday, November 06, 2001 2:40 PM
To: Image-Pro Plus Users Email List
Subject: ImagePro>3D processing.
Hello:
This is a sort of futuristic question. Does Image-Pro have the capabilities
to do 3D computations? For e.g is it possible to apply 3D kernel based
calculations on a image stack (sequence) made up of individual confocal
slices? Would it be possible to develop a macro to do this ?(though this
sounds incredibly complex)
This would be useful in finding objects in different image plans when
objects span across multiple image planes including basic operations like
sharpening etc. With confocal microscopy(hardware or software) becoming
prevalent would this be a future direction that Image-Pro would like to go ?
Thanks.
Anil
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