Alexander WiebelTable of Contents
- Table of Contents
- Features (Selection)
- Tool comparision
- Supported file formats
- System Requirements
- The Name OpenWalnut
- Contact
Features (Selection)
- Fiber-Stipples (illustrative slice based probabilistic tract rendering)
- Selection, display and clustering of deterministic tracts
- Data Slicing (axial, coronal and sagittal) with additional colormapping for e.g. probabilistic tracts
- Isosurface (ray-casted as well as triangulated (marching cubes))
- SuperQuadric tensor glyphs
- HARDI-glyphs using Thomas Schultz's implementation in teem
- LIC on triangulated surfaces
- Distance Map
- Voxelization of fibers
- Vector plot for eigenvectors of diffusion tensors
Tool comparision
If you have any suggestions just let us know. The following comparisons are not claimed to be comprehensive. They only represent a selection of differences that seemed important to us at the moment we wrote the respective comparison. Additionally, although the comparisons represent the best of our knowledge, we do not guarantee that they are correct or up-to-date.
| Toolname | Advantages of OpenWalnut (as of 2013) |
|---|---|
| FiberNavigator | OpenWalnut 1.0 had very similar features but allowed to load data with arbitrary coordinate systems as defined by NIfTI files. |
| FSL | |
| MeVisLab | OpenWalnut and MeVisLab both implement a network-based data flow approach and focus on interactivity. While MeVisLab exposes the network to the users to allow them visual programming, OpenWalnut intentionally hides these details from the users. OpenWalnut presents all available functionality in a ready-to-use GUI. MeVisLab also provides the possibility to combine certain modules an GUI elements, but this allows more for very specialized interfaces for certain work-flows than for a complete software. OpenWalnut is already a complete tool for analyzing neuroscience data instead of only a framework that can building such an application. |
| ITK | We are working on integrating parts of ITK into special OpenWalnut modules. |
| VisTrails | VisTrails is a workflow and provenance management system that can support different visualization toolkits and softwares. |
| Amira | Amira is not freely available. |
| SCIRun | Power Apps can hide the complexity of the data flow environment of SCIRun behind a simplified application specific graphical user interface. |
| VisIt | VisIt is not intended for medical measurement data. |
| medInria | |
| MRIcron | |
| MRIcroGL | |
| ExploreDTI | Implemented in Matlab. |
| BrainVoyager | BrainVoyager is not freely available. |
Supported file formats
| Category | Fact | Suffixes | Additional Information | Read | Write |
|---|---|---|---|---|---|
| Standard MRT file format | NIfTI | .nii/.nii.gz |
NIfTI FAQ, data alignment, image dimensions, Tools | yes | yes |
| Standard EEG recording file format | CNT | .cnt |
yes | no | |
| Standard EEG channel location file format | ASA electrode or EETrak | .elc |
yes | no | |
| Standard fiber file format | VTK legacy | .fib |
Same as MedINRIA uses | yes | yes |
| Particle detector file format | pCT CSV Format | .csv |
yes | yes |
System Requirements
- A current operating system:
- GNU/Linux: Debian, Ubuntu, SuSE
- Windows: 7, 8, 10
- Mac: OSX 10.6.x
- 3D graphics card (e.g. NVidia, ATI and others)
- We do not support Mesa-only cards. Mesa has several GLSL-related problems right now (2013). The current SVN version (18.8.11) of Mesa will work.
- Some Gigabytes of RAM
- We recommend many-core systems!
The Name OpenWalnut
The main ideas behind the name OpenWalnut (short ow or sometimes just walnut) are:
- We honor open source
- A brain looks like a walnut.
- The name was not taken at the time the project started (see http://www.google.com/search?hl=en&q="OpenWalnut"&btnG=Search).
Contact
See People and Contribute.