Tweet
Dear fellow biomech-netters,
Here's a list of the replies I got in response to my query (see below).
Many thanks to everyone who contributed. I will add to the summary any
more replies I get in future.
Regards,
Ashvin Thambyah
Dept of Orthopaedic Surgery
National University of Singapore
************************************************** *******************
(Original Query)
From: Ashvin Thambyah
Subject: Using NIH Image 1.57
To: Multiple recipients of list BIOMCH-L
Hi fellow biomech-netters,
I've got digitised image slices (tif format) of lumbar spine (L3-5), that
I would like to reconstruct digitally in 3D. I was told that NIH Image
1.57 is a 3D reconstruction software that could be used for this purpose.
Could anyone out there confirm this from personal experience? Also, would
anybody care to suggest the use of any other public domain 3D recon. software
available?
Thanks in advance.
Ashvin Thambyah
Dept of Orthopaedic Surgery
National University of Singapore
************************************************** *******************
REPLIES REPLIES REPLIES REPLIES REPLIES
************************************************** *******************
Date: Wed, 13 Mar 1996 12:02:49 +0800 (WST)
From: Natalie Mrachacz
To: Ashvin Thambyah
Subject: Re: Using NIH Image 1.57
Dear Ashwin Thambyah,
we've started some 3D reconstruction projects during the last few months
and we're using NIH Image 1.54. Meanwhile there's an update to ver 1.58/1.59
but we didn't use that one often yet. The mentioned version (1.54)
includes a 3D function, which allows you to form stacks out of images of equal size
and construct a view perpendicular to the image plane. This will give you
a quite good picture of the perpendicular view if the image resolution is
high and image plane distances are small (as in CT images). But this
function is not a real 3D-reconstruction tool.
To solve this problem we are trying a CAD application, which is called
"Vellum 3D". It's a mac application and the main reason for chosing that
one was the price: A university licence costs about 150,- German Marks,
accordingly 100,- US$. It looks like it will work, but we've just started.
If you are interested in more details you should contact
Marion Boehle
She is working on it at the moment.
I will be a guest at UWA, Perth, Australia, until 08-04-96. So this is
actually not my own e-mail adress.
Good luck
Uwe
--------------------
Uwe Kersting
German Sport University - Cologne
Institute for Athletics and Gymnastics
Carl-Diem-Weg 6
50933 Cologne, Germany
phone: ++49 221 4982 416
--------------------
************************************************** ***********************
From: J.M.V.Rayner@Bristol.ac.uk (JMV. Rayner)
Message-Id:
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
Date: Wed, 13 Mar 1996 08:53:16 +0000 (GMT)
YEs, Image can do this quite well. For more info, follow the Image e-mail
list: plenty of people will help you.
Jeremy Rayner
+++++++++++++++++++++++++++++++++++++++++++
Professor Jeremy M. V. Rayner
School of Biological Sciences
University of Bristol, Woodland Road, Bristol BS8 1UG, U.K.
tel. +44 117 928 8111, messages +44 117 928 7476, fax +44 117 925 7374
e-mail J.M.V.Rayner@bristol.ac.uk
************************************************** *********************
To: Ashvin Thambyah
From: churchil@salus.med.uvm.edu (David Churchill)
Subject: Re: Using NIH Image 1.57
Ashvin,
If you have access to the "world wide web" take a look at the
following site. It contains a summary of free graphics software for a
nunmber of different computer platforms:
http://www.cs.ubc.ca/spider/ladic/software.html
Good Luck
Dave C.
-------------------------------------------------------------------
David L. Churchill Ph.D.
Department of Orthopaedics & Rehabilitation
University of Vermont
Burlington, VT 05405-0084
churchil@salus.med.uvm.edu
(802) 656-4507
(802) 656-4247 (fax)
-------------------------------------------------------------------
************************************************** *********************
From: cmf@bihobl2.bih.harvard.edu (Catherine M. Ford)
Message-Id:
To: dosta@leonis.nus.sg
Subject: NIH Image
Dear Ashvin,
I have some experience using NIH Image for reconstructing QCT images of
the proximal femur. I've found the program to be extremely useful and
easy to learn. Given a set of digitized slices, it's quite simple to
"reslice" the dataset to look at whatever cross sections you might be
interested in, and to quantify density information in particular regions of
interest. The macro language makes customization and automation
of the process fairly easy. We are currently using NIH Image version 1.58 in
our lab.
Regards,
Catherine Ford
Orthopedic Biomechanics Laboratory
Beth Israel Hospital & Harvard Medical School
Boston, MA
************************************************** ********************
From: "Chris Hurschler"
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
I think there is a NIH image list out there. Also, there is lots of
discussion on NIH image on the confocal microscopy list. You should
be able to find both using a lycos or other search. Let me know if
you need more specific information.
Chris
:==================================:
: Christof Hurschler :
: UW Orthopedic Research Labs :
: Phone: 608-263-1343 :
: hurschle@ortho.surgery.wisc.edu :
:==================================:
************************************************** ***************************
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
Date: Wed, 13 Mar 96 9:31:25 MST
From: "Ton van den Bogert"
Try:
http://www.cs.ruu.nl/wais/html/na-dir/medical-image-faq/volume-visualization.html
-- Ton van den Bogert
Human Performance Laboratory
University of Calgary
************************************************** ************************
From: Gideon Ariel
Subject: Re: Using NIH Image 1.57
Surf the net at:
http://www.arielnet.com
************************************************** **************************
From: ("V.S.Lee")
Message-Id:
Date: Fri, 15 Mar 1996 21:45:37 +0000
In-Reply-To: Ashvin Thambyah
"Using NIH Image 1.57" (Mar 13, 10:42am)
Hello Ashvin,
Have you tried 3dViewnix from University of Pennsylvania.
I am not sure if it takes tiff files.
You can ftp it from
mipgsun.mipg.upenn.edu/pub/3DVIEWNIX1.1
Prior to that, I suggest you look at their homepage at
http://mipgsun.mipg.upenn.edu
and also for a list of 3d reconstruction software see
http://biocomp.arc.nasa.gov/3dreconstruction/
Cheerio,
Peter Lee.
Bioengineering Unit
University of Strathclyde.
Here's a list of the replies I got in response to my query (see below).
Many thanks to everyone who contributed. I will add to the summary any
more replies I get in future.
Regards,
Ashvin Thambyah
Dept of Orthopaedic Surgery
National University of Singapore
************************************************** *******************
(Original Query)
From: Ashvin Thambyah
Subject: Using NIH Image 1.57
To: Multiple recipients of list BIOMCH-L
Hi fellow biomech-netters,
I've got digitised image slices (tif format) of lumbar spine (L3-5), that
I would like to reconstruct digitally in 3D. I was told that NIH Image
1.57 is a 3D reconstruction software that could be used for this purpose.
Could anyone out there confirm this from personal experience? Also, would
anybody care to suggest the use of any other public domain 3D recon. software
available?
Thanks in advance.
Ashvin Thambyah
Dept of Orthopaedic Surgery
National University of Singapore
************************************************** *******************
REPLIES REPLIES REPLIES REPLIES REPLIES
************************************************** *******************
Date: Wed, 13 Mar 1996 12:02:49 +0800 (WST)
From: Natalie Mrachacz
To: Ashvin Thambyah
Subject: Re: Using NIH Image 1.57
Dear Ashwin Thambyah,
we've started some 3D reconstruction projects during the last few months
and we're using NIH Image 1.54. Meanwhile there's an update to ver 1.58/1.59
but we didn't use that one often yet. The mentioned version (1.54)
includes a 3D function, which allows you to form stacks out of images of equal size
and construct a view perpendicular to the image plane. This will give you
a quite good picture of the perpendicular view if the image resolution is
high and image plane distances are small (as in CT images). But this
function is not a real 3D-reconstruction tool.
To solve this problem we are trying a CAD application, which is called
"Vellum 3D". It's a mac application and the main reason for chosing that
one was the price: A university licence costs about 150,- German Marks,
accordingly 100,- US$. It looks like it will work, but we've just started.
If you are interested in more details you should contact
Marion Boehle
She is working on it at the moment.
I will be a guest at UWA, Perth, Australia, until 08-04-96. So this is
actually not my own e-mail adress.
Good luck
Uwe
--------------------
Uwe Kersting
German Sport University - Cologne
Institute for Athletics and Gymnastics
Carl-Diem-Weg 6
50933 Cologne, Germany
phone: ++49 221 4982 416
--------------------
************************************************** ***********************
From: J.M.V.Rayner@Bristol.ac.uk (JMV. Rayner)
Message-Id:
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
Date: Wed, 13 Mar 1996 08:53:16 +0000 (GMT)
YEs, Image can do this quite well. For more info, follow the Image e-mail
list: plenty of people will help you.
Jeremy Rayner
+++++++++++++++++++++++++++++++++++++++++++
Professor Jeremy M. V. Rayner
School of Biological Sciences
University of Bristol, Woodland Road, Bristol BS8 1UG, U.K.
tel. +44 117 928 8111, messages +44 117 928 7476, fax +44 117 925 7374
e-mail J.M.V.Rayner@bristol.ac.uk
************************************************** *********************
To: Ashvin Thambyah
From: churchil@salus.med.uvm.edu (David Churchill)
Subject: Re: Using NIH Image 1.57
Ashvin,
If you have access to the "world wide web" take a look at the
following site. It contains a summary of free graphics software for a
nunmber of different computer platforms:
http://www.cs.ubc.ca/spider/ladic/software.html
Good Luck
Dave C.
-------------------------------------------------------------------
David L. Churchill Ph.D.
Department of Orthopaedics & Rehabilitation
University of Vermont
Burlington, VT 05405-0084
churchil@salus.med.uvm.edu
(802) 656-4507
(802) 656-4247 (fax)
-------------------------------------------------------------------
************************************************** *********************
From: cmf@bihobl2.bih.harvard.edu (Catherine M. Ford)
Message-Id:
To: dosta@leonis.nus.sg
Subject: NIH Image
Dear Ashvin,
I have some experience using NIH Image for reconstructing QCT images of
the proximal femur. I've found the program to be extremely useful and
easy to learn. Given a set of digitized slices, it's quite simple to
"reslice" the dataset to look at whatever cross sections you might be
interested in, and to quantify density information in particular regions of
interest. The macro language makes customization and automation
of the process fairly easy. We are currently using NIH Image version 1.58 in
our lab.
Regards,
Catherine Ford
Orthopedic Biomechanics Laboratory
Beth Israel Hospital & Harvard Medical School
Boston, MA
************************************************** ********************
From: "Chris Hurschler"
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
I think there is a NIH image list out there. Also, there is lots of
discussion on NIH image on the confocal microscopy list. You should
be able to find both using a lycos or other search. Let me know if
you need more specific information.
Chris
:==================================:
: Christof Hurschler :
: UW Orthopedic Research Labs :
: Phone: 608-263-1343 :
: hurschle@ortho.surgery.wisc.edu :
:==================================:
************************************************** ***************************
Subject: Re: Using NIH Image 1.57
To: dosta@leonis.nus.sg
Date: Wed, 13 Mar 96 9:31:25 MST
From: "Ton van den Bogert"
Try:
http://www.cs.ruu.nl/wais/html/na-dir/medical-image-faq/volume-visualization.html
-- Ton van den Bogert
Human Performance Laboratory
University of Calgary
************************************************** ************************
From: Gideon Ariel
Subject: Re: Using NIH Image 1.57
Surf the net at:
http://www.arielnet.com
************************************************** **************************
From: ("V.S.Lee")
Message-Id:
Date: Fri, 15 Mar 1996 21:45:37 +0000
In-Reply-To: Ashvin Thambyah
"Using NIH Image 1.57" (Mar 13, 10:42am)
Hello Ashvin,
Have you tried 3dViewnix from University of Pennsylvania.
I am not sure if it takes tiff files.
You can ftp it from
mipgsun.mipg.upenn.edu/pub/3DVIEWNIX1.1
Prior to that, I suggest you look at their homepage at
http://mipgsun.mipg.upenn.edu
and also for a list of 3d reconstruction software see
http://biocomp.arc.nasa.gov/3dreconstruction/
Cheerio,
Peter Lee.
Bioengineering Unit
University of Strathclyde.