Morphologist Simplifié 2013

None

Paramètres

t1mri: Raw T1 MRI ( entrée )

perform_segmentation: Booléen ( input )

method_ACPC: Choice ( input )

commissure_coordinates: Commissure coordinates ( sortie )

anterior_commissure: Point3D ( optional, input )

posterior_commissure: Point3D ( optional, input )

interhemispheric_point: Point3D ( optional, input )

left_hemisphere_point: Point3D ( optional, input )

anatomical_template: anatomical Template ( optional, entrée )

job_file: SPM2 parameters ( optional, sortie )

transformations_information: SPM2 normalization matrix ( sortie )

normalized_t1mri: Raw T1 MRI ( sortie )

talairach_MNI_transform: Transform Raw T1 MRI to Talairach-MNI template-SPM ( sortie )

source_referential: Referential of Raw T1 MRI ( entrée )

normalized_referential: Referential ( entrée )

tal_to_normalized_transform: ListOf ( input )

t1mri_nobias: IRM T1 Biais Corrigé ( sortie )

hfiltered: T1 MRI Filtered For Histo ( sortie )

white_ridges: T1 MRI White Matter Ridges ( sortie )

variance: T1 MRI Variance ( sortie )

edges: T1 MRI Edges ( sortie )

field: T1 MRI Bias Field ( sortie )

meancurvature: T1 MRI Mean Curvature ( sortie )

histo_analysis: Analyse d'histogramme ( sortie )

histo: Histogramme ( sortie )

brain_mask: T1 Brain Mask ( sortie )

split_brain: Séparation du masque du cerveau ( sortie )

split_template: Hemispheres Template ( entrée )

talairach_ACPC_transform: Transform Raw T1 MRI to Talairach-AC/PC-Anatomist ( sortie )

left_grey_white: Left Grey White Mask ( sortie )

right_grey_white: Right Grey White Mask ( sortie )

perform_meshes_and_graphs: Booléen ( input )

left_hemi_cortex: Left CSF+GREY Mask ( sortie )

right_hemi_cortex: Right CSF+GREY Mask ( sortie )

left_white_mesh: Left Hemisphere White Mesh ( sortie )

right_white_mesh: Right Hemisphere White Mesh ( sortie )

left_skeleton: Left Cortex Skeleton ( sortie )

left_roots: Left Cortex Catchment Bassins ( sortie )

right_skeleton: Right Cortex Skeleton ( sortie )

right_roots: Right Cortex Catchment Bassins ( sortie )

left_pial_mesh: Left Hemisphere Mesh ( sortie )

right_pial_mesh: Right Hemisphere Mesh ( sortie )

left_graph: Left Cortical folds graph ( sortie )

left_sulci_voronoi: Voronoï de sillons ( sortie )

left_cortex_mid_interface: Grey White Mid-Interface Volume ( sortie )

right_graph: Right Cortical folds graph ( sortie )

right_sulci_voronoi: Voronoï de sillons ( sortie )

right_cortex_mid_interface: Grey White Mid-Interface Volume ( sortie )

perform_sulci_SPAM_recognition: Booléen ( input )

labels_translation_map: Label translation ( entrée )

left_labelled_graph: Labelled Cortical folds graph ( sortie )

left_posterior_probabilities: Sulci Labels Segmentwise Posterior Probabilities ( sortie )

left_labels_priors: Sulci Labels Priors ( entrée )

left_global_model: Sulci Segments Model ( entrée )

left_tal_to_global_transform: Sulci Talairach to Global SPAM transformation ( sortie )

left_t1_to_global_transform: Raw T1 to Global SPAM transformation ( sortie )

left_local_model: Sulci Segments Model ( entrée )

left_local_referentials: Sulci Local referentials ( entrée )

left_direction_priors: Sulci Direction Transformation Priors ( entrée )

left_angle_priors: Sulci Angle Transformation Priors ( entrée )

left_translation_priors: Sulci Translation Transformation Priors ( entrée )

left_global_to_local_transforms: Sulci Local SPAM transformations Directory ( sortie )

right_labelled_graph: Labelled Cortical folds graph ( sortie )

right_posterior_probabilities: Sulci Labels Segmentwise Posterior Probabilities ( sortie )

right_labels_priors: Sulci Labels Priors ( entrée )

right_global_model: Sulci Segments Model ( entrée )

right_tal_to_global_transform: Sulci Talairach to Global SPAM transformation ( sortie )

right_t1_to_global_transform: Raw T1 to Global SPAM transformation ( sortie )

right_local_model: Sulci Segments Model ( entrée )

right_local_referentials: Sulci Local referentials ( entrée )

right_direction_priors: Sulci Direction Transformation Priors ( entrée )

right_angle_priors: Sulci Angle Transformation Priors ( entrée )

right_translation_priors: Sulci Translation Transformation Priors ( entrée )

right_global_to_local_transforms: Sulci Local SPAM transformations Directory ( sortie )

Informations techniques

Toolbox : Morphologist

Niveau d'utilisateur : 0

Identifiant : morphologistProcess

Nom de fichier : brainvisa/toolboxes/morphologist/processes/segmentationpipeline/morphologistProcess.py

Supported file formats :

t1mri :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

commissure_coordinates :

Commissure coordinates

anatomical_template :

NIFTI-1 image, MINC image, SPM image

job_file :

Matlab file

transformations_information :

Matlab file

normalized_t1mri :

NIFTI-1 image, SPM image

talairach_MNI_transform :

Transformation matrix

source_referential :

Referential

normalized_referential :

Referential

t1mri_nobias :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

hfiltered :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

white_ridges :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

variance :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

edges :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

field :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

meancurvature :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

histo_analysis :

Analyse d'histogramme

histo :

Histogramme

brain_mask :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

split_brain :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

split_template :

GIS image, VIDA image, NIFTI-1 image, MINC image, gz compressed MINC image, DICOM image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, TIFF(.tif) image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

talairach_ACPC_transform :

Transformation matrix

left_grey_white :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_grey_white :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

left_hemi_cortex :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_hemi_cortex :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

left_white_mesh :

Maillage TRI, PLY mesh, Maillage MESH, GIFTI file, MNI OBJ mesh

right_white_mesh :

Maillage TRI, PLY mesh, Maillage MESH, GIFTI file, MNI OBJ mesh

left_skeleton :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

left_roots :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_skeleton :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_roots :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

left_pial_mesh :

Maillage TRI, PLY mesh, Maillage MESH, GIFTI file, MNI OBJ mesh

right_pial_mesh :

Maillage TRI, PLY mesh, Maillage MESH, GIFTI file, MNI OBJ mesh

left_graph :

Graph and data

left_sulci_voronoi :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

left_cortex_mid_interface :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_graph :

Graph and data

right_sulci_voronoi :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

right_cortex_mid_interface :

GIS image, VIDA image, NIFTI-1 image, MINC image, TIFF image, XBM image, PBM image, PGM image, BMP image, XPM image, PPM image, gz compressed NIFTI-1 image, ECAT i image, PNG image, JPEG image, MNG image, GIF image, SPM image, ECAT v image

labels_translation_map :

Label Translation, DEF Label Translation

left_labelled_graph :

Graph and data

left_posterior_probabilities :

CSV file

left_labels_priors :

Text Data Table

left_global_model :

Text Data Table

left_tal_to_global_transform :

Transformation matrix

left_t1_to_global_transform :

Transformation matrix

left_local_model :

Text Data Table

left_local_referentials :

Text Data Table

left_direction_priors :

Text Data Table

left_angle_priors :

Text Data Table

left_translation_priors :

Text Data Table

left_global_to_local_transforms :

Répertoire

right_labelled_graph :

Graph and data

right_posterior_probabilities :

CSV file

right_labels_priors :

Text Data Table

right_global_model :

Text Data Table

right_tal_to_global_transform :

Transformation matrix

right_t1_to_global_transform :

Transformation matrix

right_local_model :

Text Data Table

right_local_referentials :

Text Data Table

right_direction_priors :

Text Data Table

right_angle_priors :

Text Data Table

right_translation_priors :

Text Data Table

right_global_to_local_transforms :

Répertoire