table of contents
| TFF_CONVERT_DSI_STUDIO.PY(1) | User Commands | TFF_CONVERT_DSI_STUDIO.PY(1) |
NAME¶
tff_convert_dsi_studio.py - fix DSI-Studio TRK file
DESCRIPTION¶
usage: tff_convert_dsi_studio.py [-h] [--remove_invalid | --keep_invalid] [-f]
- IN_DSI_TRACTOGRAM IN_DSI_FA OUT_TRACTOGRAM
This script is made to fix DSI-Studio TRK file (unknown space/convention) to make it compatible with TrackVis, MI-Brain, Dipy Horizon (Stateful Tractogram).
The script either make it match with an anatomy from DSI-Studio.
This script was tested on various datasets and worked on all of them. However, always verify the results and if a specific case does not work. Open an issue on the Scilpy GitHub repository.
WARNING: This script is still experimental, DSI-Studio evolves quickly and results may vary depending on the data itself as well as DSI-studio version.
positional arguments:¶
- IN_DSI_TRACTOGRAM
- Path of the input tractogram file from DSI studio (.trk).
- IN_DSI_FA
- Path of the input FA from DSI Studio (.nii.gz).
- OUT_TRACTOGRAM
- Path of the output tractogram file.
options:¶
- -h, --help
- show this help message and exit
- --remove_invalid
- Remove the streamlines landing out of the bounding box.
- --keep_invalid
- Keep the streamlines landing out of the bounding box.
- -f
- Force overwriting of the output files.
| January 2024 | tff_convert_dsi_studio.py 0.2.9 |