Running NiFreeze¶
Command line interface¶
A model-based algorithm for the realignment of 4D brain images.
usage: nifreeze [-h] [--align_config ALIGN_CONFIG]
[--models MODELS [MODELS ...]] [--nthreads NTHREADS]
[--njobs NJOBS] [--seed SEED] [--output_dir OUTPUT_DIR]
input_file
Positional Arguments¶
- input_file
Path to the HDF5 file containing the original DWI data.
Named Arguments¶
- --align_config
Path to the yaml file containing the parameters to configure the image registration process.
- --models
Select the diffusion model for registration targets.
- --nthreads
Maximum number of threads an individual process may use.
- --njobs
Number of parallel jobs.
- --seed
Seed the random number generator for deterministic estimation.
- --output_dir
Path to the output directory. Defaults to the current directory.The output file will have the same name as the input file.