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https://github.com/casperdcl/brain_phantom

3D continuous brain phantom

https://github.com/casperdcl/brain_phantom

Science Score: 23.0%

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brain medical-imaging phantom vtk
Last synced: 5 months ago · JSON representation

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3D continuous brain phantom

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Topics
brain medical-imaging phantom vtk
Created almost 9 years ago · Last pushed over 8 years ago
Metadata Files
Readme

README.rst 

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

Owner

  • Name: Casper da Costa-Luis
  • Login: casperdcl
  • Kind: user
  • Location: London, UK

Open Core Software Consultant & Technical Product Manager; Computational Physicist; member of IEEE, IOP, & @python Software Foundation

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