The 3DVis package provides a bundle for coregistering brain imaging data to create 3D reconstructions with electrode placement and labeled brain regions. It is distributed under the GNU General Public License: http://opensource.org/licenses/gpl-3.0.html. Any results published using this package should reference the soon-to-be finished paper. Tentative citation: "An open-source pipeline for visualization of intracranially implanted electrodes using 3D CT-MRI co-registration." Jue Wu, Allan Azarion, Allison Pearce, Kathryn Davis, Yuanjie Zheng, Hongzhi Wang, Brian Litt, James Gee. In submission to Epilepsia.

This package contains many components of open source, freely available software included for ease of use and installation. They are provided subject to the terms of their licenses. For more information about individual components, please see the documentation or visit the original developers' websites.

To install on 64-bit Linux: clone the repository. Download and unzip all packages from the Downloads section and place them in the "lib" directory. Follow the initialization instructions found in Coregister.pdf in the "doc" folder.

Other platforms: Mac users will need to download the files and binaries for the external programs separately using the links below and add them to the path. This package is not currently supported on Windows.

ANTs Home Page: http://www.picsl.upenn.edu/ANTS/
FSL License: http://www.fmrib.ox.ac.uk/fsl/fsl/licence.html
FSL Home Page: http://www.fmrib.ox.ac.uk/fsl/index.html
ITK-SNAP General Public License: http://www.gnu.org/licenses/gpl-3.0.txt
ITK-SNAP Home Page: http://www.itksnap.org/pmwiki/pmwiki.php
MRIcron License: http://www.mccauslandcenter.sc.edu/mricro/mricron/install.html
MRIcron dcm2nii Home Page: http://www.mccauslandcenter.sc.edu/mricro/mricron/dcm2nii.html 
NIfTI and ANALYZE Tools for MATLAB: http://www.mathworks.com/matlabcentral/fileexchange/8797