Compute equivolumetric depth
Compute equivolumetric depthCompute Bok’s equivolumetric depth, which models the depth of cortical layers while compensating for local cortical curvature.
The only mandatory input is
classif, the output isequivolumetric_depth. You can fine-tune the process with optional parameters, most importantlyadvection_step_sizecan be adapted to the spatial resolution and required accuracy.For a full description of this method, see this poster:
Yann Leprince, Fabrice Poupon, Thierry Delzescaux, Dominique Hasboun, Cyril Poupon, Denis Rivière. Combined Laplacian-equivolumic model for studying cortical lamination with ultra high field MRI (7 T). 2015 IEEE 12th International Symposium on Biomedical Imaging (ISBI), IEEE, Apr 2015, New York, United States. pp.580-583, DOI: 10.1109/ISBI.2015.7163940. https://hal-cea.archives-ouvertes.fr/cea-01119475
classif: Any Type ( entrée )classification image of the cortex (100 inside, 0 in CSF, 200 in white matter)
verbosity: Entier ( optional, input )Verbosity level
laplace_precision: Nombre ( optional, input )target maximum relative error in first-order finite differences
laplace_typical_cortical_thickness: Nombre ( optional, input )typical thickness of the cortex (mm), used for accelerating convergence
smoothing_sigma: Nombre ( optional, input )X standard deviation of the gaussian filter [default=largest voxel size]
advection_step_size: Nombre ( optional, input )size of the advection step (millimetres)
advection_max_dist: Nombre ( optional, input )maximum advection distance (millimetres)
equivolumetric_depth: Any Type ( sortie )output image
use_capsul_completion: Booléen ( input )
edit_pipeline: Booléen ( input )
capsul_gui: Booléen ( input )
edit_study_config: Booléen ( input )
Toolbox : highres-cortex
Niveau d'utilisateur : 0
Identifiant :
isovolumeNom de fichier :
brainvisa/toolboxes/highres_cortex/processes/isovolume.pySupported file formats :
classif :Répertoire, BMP image, Répertoire, ECAT i image, ECAT v image, Fichier, GIF image, GIS image, JPEG image, MINC image, MNG image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, TIFF image, TIFF(.tif) image, VIDA image, XBM image, XPM image, gz compressed MINC image, gz compressed NIFTI-1 imageequivolumetric_depth :Répertoire, BMP image, Répertoire, ECAT i image, ECAT v image, Fichier, GIF image, GIS image, JPEG image, MINC image, MNG image, NIFTI-1 image, PBM image, PGM image, PNG image, PPM image, SPM image, TIFF image, TIFF(.tif) image, VIDA image, XBM image, XPM image, gz compressed MINC image, gz compressed NIFTI-1 image