A napari i/o plugin for neuroimaging formats (via nibabel/pydicom). Note that this project is in an early prototype stage and is missing many features.
Currently, it should be able to open the following formats in Napari:
NIFTI1, NIFTI2, ANALYZE, Philips PAR/REC, MINC1, MINC2, AFNI BRIK/HEAD and MGH/MGZ.
The following features are still pending:
- use affine information to orient and size the volumes properly
- use voxel dimensions so that anisotropic volumes will be displayed properly
- center the napari display at the coordinate origin upon opening
- add DICOM support
- add ECAT format support (PET)
- add file writing support
You can install
napari-nibabel via pip:
pip install napari-nibabel
Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.
Distributed under the terms of the BSD 3-Clause license, "napari-nibabel" is free and open source software
If you encounter any problems, please file an issue along with a detailed description.