to MI-Brains main functions
• Streamline visualization
• Virtual streamlines dissection
• ROI tools
• Streamline cutting
• High resolution screenshots
• Handles .trk and .tck
• World coords
• Peaks visualization
• RGB visualization
• Surface coloring
• Local, endpoints, shuffle, single and from
anatomy streamline coloring
• Create surface from ROI
• Bounding object, mask and surface streamline
• Segmentation tool
• And more…
You need to be connected to the Internet only during the MI-Brain installation and if you want to get software update notices. Otherwise, it's perfectly fine to use MI-Brain offline.
The MI-Brain software works in LPS world coordinate as opposed to voxel mm coordinates (TrackVis, Fibernavigator). RAS data will be transformed to LPS internally. Make sure your data is aligned in world coordinates.
Peaks images are conceptually vector images in 3D. However, in practice, they are represented as 4D float images. MI-Brain would present them (Right-click on a node - Details...) as such:
Dimensions: width height depth (3 | 6 | 9 | 12 | 15)
The 4th dimension is used to store the vectors. Each voxel contains from 0 to 5 3D-vectors (hence the multiple of 3). The data for a voxel is always packed in the form XYZXYZXYZXYZXYZ. The absence of information is declared with NANs or a zero-vector.
Most of the algorithms in MI-Brain, such as streamline filtering and streamline cutting, are robust to compressed streamlines
Only if you bought a license from Imeka. To do so, please contact firstname.lastname@example.org
Please send a complete bug report at email@example.com
Please send an email to firstname.lastname@example.org
Maybe. We have limited hardware resources and most of our users use Intel processors and NVIDIA graphic cards. Make sure to update your graphic card drivers to the latest version. Additionally, on Linux systems, we recommend using the closed source drivers instead of the Nouveau family of drivers.
We tested the software only on OS X 10.11 El Capitan and OS X 10.12 Sierra. It probably works on OS X 10.10 Yosemite too.
macOS tries to protect you from “unsafe” applications. To open the application, Cmd+Right-Click on MI-Brain icon - Open - Open
We mostly tested the software on Ubuntu 14.04 and Ubuntu 16.04 but it’s also known to work on Debian 8, Mint 17 and Mint 18.
libpng12 is not pre-installed on Ubuntu 18.04, you need to do it yourself. You can download the .deb from this link: security.ubuntu.com/ubuntu/pool/main/libp/libpng/libpng12-0_1.2.54-1ubuntu1.1_amd64.deb
and install it with the command: sudo dpkg -i libpng12-*.deb
MI-Brain is known to work on Windows 7, 8 and 10
This is not recommended and we don’t support it. MI-Brain relies heavily on the 3D capabilities of the graphic card and needs bare metal access
Exit application: Ctrl/Cmd-q
Save selection: Ctrl/Cmd-s
Zoom: Hold right mouse button
Move crosshair: Left mouse button
Translate: Middle mouse button
Move: Hold Ctrl/Cmd + Left mouse button
Resize: Hold Ctrl/Cmd + Right mouse button
Rotate: Hold Ctrl/Cmd + Middle mouse button