polpo.preprocessing.mri#

Classes#

AshsPrincetonYoungAdult3TEncoding()

Encoding of hippocampus subfields.

BrainStructEncoding(midline_structs, ...)

FreeSurferStructEncoding()

https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurferColorLUT

FslFirstStructEncoding()

https://fsl.fmrib.ox.ac.uk/fsl/docs/#/structural/first?id=supported-structures

LocalToTemplateTransform([template_affine])

Get transform from local to template system.

MeshExtractorFromSegmentedImage([struct_id, ...])

Mesh extractor from images.

MriImageLoader([filename, as_nib, return_affine])

Load image from .nii/.mgz file.

PreprocessingStep()

Preprocessing step.

SkimageMarchingCubes([level, step_size, ...])

https://scikit-image.org/docs/stable/api/skimage.measure.html#skimage.measure.marching_cubes

StructEncoding(structs, ids, colors)