| Name | clinica-pydra-fsl JSON |
| Version |
0.1.0
JSON |
| download |
| home_page | None |
| Summary | Pydra tasks for FSL designed for Clinica |
| upload_time | 2024-04-30 12:45:22 |
| maintainer | None |
| docs_url | None |
| author | None |
| requires_python | >=3.8 |
| license | None |
| keywords |
fsl
neuroimaging
pydra
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
# pydra-fsl
[![PyPI - Version][pypi-version]][pypi-project]
[![PyPI - Python Version][pypi-pyversions]][pypi-project]
![][status-docs]
![][status-test]
----
Pydra tasks for FSL designed for Clinica.
[Pydra][pydra] is a dataflow engine which provides
a set of lightweight abstractions for DAG
construction, manipulation, and distributed execution.
[FSL][fsl] is a comprehensive library of analysis tools
for FMRI, MRI and DTI brain imaging data.
## Available tasks
| Module | Tasks |
|--------|--------------------------------------------------------------------------------------------------------------------|
| bet | BET, RobustFOV |
| eddy | Eddy, ApplyTopup, Topup |
| fast | FAST |
| flirt | FLIRT, ApplyXFM, ConcatXFM, ConvertXFM, InvertXFM, FixScaleSkew, Img2ImgCoord, Img2StdCoord, Std2ImgCoord |
| fnirt | FNIRT, FNIRTFileUtils, ApplyWarp, ConvertWarp, InvWarp |
| fugue | FUGUE, PrepareFieldmap, Prelude, SigLoss |
| maths | (**experimental**) Maths, Mul |
| susan | SUSAN |
| utils | ChFileType, FFT, Info, Interleave, Merge, Orient, Reorient2Std, ROI, SelectVols, Slice, SmoothFill, Split, SwapDim |
## Installation
```console
pip install clinica-pydra-fsl
```
A separate installation of FSL is required to use this package.
Please review the FSL [installation instructions][fsl-install]
and [licensing details][fsl-license].
## Development
This project is managed with [Hatch][hatch]:
```console
pipx install hatch
```
To run the test suite:
```console
hatch run test
```
To fix linting issues:
```console
hatch fmt
```
## License
This project is distributed under the terms of the [Apache License, Version 2.0][license].
[pypi-project]: https://pypi.org/project/clinica-pydra-fsl
[pypi-version]: https://img.shields.io/pypi/v/clinica-pydra-fsl.svg
[pypi-pyversions]: https://img.shields.io/pypi/pyversions/clinica-pydra-fsl.svg
[status-docs]: https://github.com/aramis-lab/clinica-pydra-fsl/actions/workflows/docs.yaml/badge.svg
[status-test]: https://github.com/aramis-lab/clinica-pydra-fsl/actions/workflows/test.yaml/badge.svg
[pydra]: https://pydra.readthedocs.io/
[fsl]: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FSL
[fsl-install]: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FslInstallation
[fsl-license]: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Licence
[hatch]: https://hatch.pypa.io/
[license]: https://spdx.org/licenses/Apache-2.0.html
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