Metadata-Version: 2.1
Name: BrainLes_preprocessing
Version: 0.0.2
Summary: TODO.
Author-email: Florian Kofler <florian.kofler@tum.de>, Isra Mekki <isra.mekki@helmholtz-muenchen.de>
Maintainer-email: Florian Kofler <florian.kofler@tum.de>, Isra Mekki <isra.mekki@helmholtz-muenchen.de>
Project-URL: repository, https://github.com/neuronflow/BrainLes
Keywords: registration,brain extraction
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: GNU Affero General Public License v3
Classifier: Operating System :: OS Independent
Requires-Python: >=3.5
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: path>=16.2.0
Requires-Dist: ttictoc>=0.5.6
Requires-Dist: pathlib>=1.0.1
Requires-Dist: nibabel>=3.2.1
Requires-Dist: numpy>=1.23.0
Requires-Dist: BrainLes-HD-BET>=0.0.5
Requires-Dist: tqdm
Requires-Dist: auxiliary>=0.0.35
Provides-Extra: dev
Requires-Dist: pytest; extra == "dev"

# niftyreg_preprocessor
does the following
* co-registration
* atlas registration
* transformation
* skullstripping in brats-space
* apply masking
* result: 4niftis, skullstripped brats-space -> save to path

## atlas
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2915788/

## installation:
```
pip install -e "git+https://github.com/neuronflow/BrainLes.git@main#egg=HD_BET&subdirectory=preprocessing/brainles_preprocessing/brain_extraction/HD_BET"
```


/home/florian/flow/BrainLesion/BrainLes/preprocessing
