nhp-dwiproc is an application, leveraging features of NiWrap and Styx to
perform processing of non-human primate (NHP) diffusion datasets. The application
aims to provide flexible, reproducible workflows for various stages of processing
(e.g. preprocessing, tractography, etc) across various acquisition protocols.
You will need the following pre-requisites:
| Tool | Version |
|---|---|
| Python | 3.11+ |
| ANTs | 2.5.3 |
| c3d | 1.1.0 |
| FSL | 6.0.5 |
| Greedy | 1.0.1 |
| Mrtrix3 | 3.0.4 |
| Mrtrix3Tissue | 5.2.8 |
Note
Mrtrix3Tissue is only required if processing single-shell data.
You can install nhp-dwiproc using pip:
pip install git+https://github.com/HumanBrainED/nhp-dwiprocFor additional details, please consult the documentation.
To get started, try using the boilerplate command:
nhp_dwiproc <bids_directory> <output_directory> <processing_stage>To see all arguments, run:
nhp_dwiproc --helpFor detailed application information, including advanced usage, please visit our documentation.
Contributions to nhp-dwiproc are welcome! Please refer to Contributions page for
information on how to contribute, report issues, or submit pull requests.
nhp-dwiproc is distributed under the MIT license. See the LICENSE file for details.
If you encounter any issues or have questions, please open an issue on the issue tracker