https://github.com/masilab/harfi_singularity
https://github.com/masilab/harfi_singularity
Last synced: 12 days ago
JSON representation
- Host: GitHub
- URL: https://github.com/masilab/harfi_singularity
- Owner: MASILab
- License: mit
- Created: 2025-05-09T18:25:29.000Z (9 months ago)
- Default Branch: main
- Last Pushed: 2025-05-09T20:54:20.000Z (9 months ago)
- Last Synced: 2025-05-09T21:41:25.043Z (9 months ago)
- Size: 1000 Bytes
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# HARFI_Singularity
The pre-built Singularity container can be downloaded at https://zenodo.org/records/15376547
Usuage:
`singularity run
--bind [INPUT_DIR]:/input,[OUTPUT_DIR]:/output
[PATH_TO_HARFI_SIF_FILE]
[R] [DISCRETE] [TR] [N]
[FMRI_IMAGE_NAME] [BRAIN_MASK_NAME] [REFERENCE_IMAGE_NAME] [OUTPUT_NAME]`
The parameters are:
R: radius of integration (voxels)
DISCRETE: discrete steps in integration
TR: repetition Time (in seconds)
N: number of volumes to remove from beginning
Users need to provide FMRI_IMAGE_NAME, BRAIN_MASK_NAME, and REFERENCE_IMAGE_NAME in the INPUT_DIR. The output files, OUTPUT_NAME.mat (MATLAB data storing all parameters and results), OUTPUT_NAME.nii.gz (correlation maps), and OUTPUT_NAME_SH_even4.nii.gz (FODs), will be saved to the OUTPUT_DIR.