https://github.com/casperdcl/brain_phantom
3D continuous brain phantom
https://github.com/casperdcl/brain_phantom
brain medical-imaging phantom vtk
Last synced: 5 months ago
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3D continuous brain phantom
- Host: GitHub
- URL: https://github.com/casperdcl/brain_phantom
- Owner: casperdcl
- Created: 2017-04-05T19:07:33.000Z (over 8 years ago)
- Default Branch: master
- Last Pushed: 2017-11-13T16:33:45.000Z (almost 8 years ago)
- Last Synced: 2025-05-09T00:57:44.196Z (5 months ago)
- Topics: brain, medical-imaging, phantom, vtk
- Language: C++
- Homepage: http://www.jhu.edu/rahmim/
- Size: 7.09 MB
- Stars: 6
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.rst
Awesome Lists containing this project
README
The NURBS-based HUman Brain (NHUB) Phantom
==========================================
|DOI| |brain_phantom-hits|
Based on a segmented MRI dataset of a normal subject (100 structures)
including the ability to simulate rigid motion of the brain
(3 translation, 3 rotation).
|NHUB|
Usage
-----
(Re)compile using ``make``, or use ``CMake`` (e.g. for ``Visual Studio``).
Then run ``dncat_bin`` (without arguments) for help:
.. code:: sh
$ make
$ ./dncat_bin
Program to produce voxelised phantoms from NURBS torso file input
Usage:
./dncat_bin [options]
Options:
-x X translation in mm
-y Y translation in mm
-z Z translation in mm
-X X rotation in degrees
-Y Y rotation in degrees
-Z Z rotation in degrees
Arguments:
: general parameter filename. Note that start_slice should be
an even number > 1 to avoid artefacts.
: base string for output files
Examples
~~~~~~~~
.. code:: sh
./dncat_bin test.par resulting_image1
will create a ``128x128x128`` sample brain image (see
`test.par `__
for definitions). The values we have used in this particular example are
somewhat close to a typical anatomic MR study (but this may need to be
better tuned and double-checked for the various regions).
References
----------
|DOI|
- Paul Segars 2006-09-03
- Casper da Costa-Luis (`casperdcl `__) 2017-05
Original can be downloaded from `here `__.
Please reference the following work (in which the construction of the
phantom has been more elaborately mentioned):
A. Rahmim, K. Dinelle, J. C. Cheng, M. A. Shilov, W. P. Segars, S. C. Lidstone, S. Blinder, O. G. Rousset, H. Vajihollahi, B. M. W. Tsui, D. F. Wong, and V. Sossi, "Accurate event-driven motion compensation in high-resolution PET incorporating scattered and random events", IEEE Trans. Med. Imag., vol. 27, pp. 1018-1033, 2008.
.. |DOI| image:: https://zenodo.org/badge/87346709.svg
:target: https://zenodo.org/badge/latestdoi/87346709
.. |NHUB| image:: https://rahmimlab.files.wordpress.com/2013/05/brain_phantom.jpg
.. |brain_phantom-hits| image:: https://caspersci.uk.to/cgi-bin/hits.cgi?q=brain_phantom
:target: https://caspersci.uk.to/cgi-bin/hits.cgi?q=brain_phantom&a=update&r=https://github.com/casperdcl/brain_phantom