Pydra tasks for FSL
Project description
pydra-fsl
Pydra tasks for FSL.
Pydra is a dataflow engine which provides a set of lightweight abstractions for DAG construction, manipulation, and distributed execution.
FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data.
Table of contents
Available tasks
| Module | Tasks |
|---|---|
| bet | BET, RobustFOV |
| eddy | Eddy |
| fast | FAST |
| flirt | FLIRT, ApplyXFM, ConcatXFM, ConvertXFM, InvertXFM, FixScaleSkew, Img2ImgCoord, Img2StdCoord, Std2ImgCoord |
| fnirt | FNIRT, FNIRTFileUtils, ApplyWarp, ConvertWarp, InvWarp |
| fugue | FUGUE, FSLPrepareFieldmap, Prelude, SigLoss |
| fslmaths | (experimental) FSLMaths, Mul |
| susan | SUSAN |
| utils | fslmaths, FSLFFT, FSLROI, FSLChFileType, FSLInfo, FSLInterleave, FSLMerge, FSLOrient, FSLReorient2Std, FSLSelectVols, FSLSlice, FSLSmoothFill, FSLSplit, FSLSwapDim |
Installation
pip install pydra-fsl
A separate installation of FSL is required to use this package. Please review the FSL installation instructions and licensing details.
Development
This project is managed with Hatch:
pipx install hatch
To run the test suite:
hatch run test
To fix linting issues:
hatch run lint:fix
License
This project is distributed under the terms of the Apache License, Version 2.0.
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