Individual Regions Filtering

Description

Example inputs/outputs:

complete_individual_matrix:      /my/path/database_brainvisa/subjects/001/diffusion/default_acquisition/default_analysis/
                                 default_tracking_session/connectivity_parcellation/avg/studyA/lh.postcentral/matrix/
                                 001_studyA_lh.postcentral_connectivityMatrixSmooth3.0.imas

reduced_individual_profile:      /my/path/database_brainvisa/subjects/001/diffusion/default_acquisition/default_analysis/
                                 default_tracking_session/connectivity_parcellation/avg/studyA/lh.postcentral/clustering/smooth3.0/
                                 001_studyA_lh.postcentral_watershed.gii

cortical_parcellation:           /my/path/database_freesurfer/group_analysis/01to40/average_brain/bh.annot.averagebrain.gii

white_mesh:                      /my/path/database_freesurfer/001/surf/bh.r.aims.white.gii

labels_nomenclature:             /my/path/share/brainvisa-share-4.5/nomenclature/translation/nomenclature_desikan_freesurfer.txt

label_name:                      lh.postcentral 

sum_label_vertices:              /my/path/database_brainvisa/subjects/001/diffusion/default_acquisition/default_analysis/
                                 default_tracking_session/connectivity_parcellation/avg/studyA/lh.postcentral/clustering/smooth3.0/
                                 001_studyA_lh.postcentral_sumValuesFromRegion.gii

duplication_label_value:         /my/path/database_brainvisa/subjects/001/diffusion/default_acquisition/default_analysis/
                                 default_tracking_session/connectivity_parcellation/avg/studyA/lh.postcentral/clustering/smooth3.0/
                                 001_studyA_lh.postcentral_spreadValueOnRegion.gii

filtered_individual_profile:     /my/path/database_brainvisa/subjects/001/diffusion/default_acquisition/default_analysis/
                                 default_tracking_session/connectivity_parcellation/avg/studyA/lh.postcentral/clustering/smooth3.0/
                                 001_studyA_lh.postcentral_filteredWatershed.gii

Parameters

regions_nomenclature: Nomenclature ROIs File ( input )

region: OpenChoice ( input )

complete_matrix_smoothed: Connectivity Matrix ( input )

reduced_individual_profile: Connectivity ROI Texture ( input )

individual_white_mesh: White Mesh ( input )

regions_parcellation: ROI Texture ( input )

sum_vertices_patch: Connectivity ROI Texture ( output )

duplication_value_patch: Connectivity ROI Texture ( output )

filtered_reduced_individual_profile: Connectivity ROI Texture ( output )

Technical information

Toolbox : Constellation

User level : 2

Identifier : constel_individual_regions_filtering

File name : brainvisa/toolboxes/constellation/processes/individual_pipelines/individual_sub_pipeline/tools/constel_individual_regions_filtering.py

Supported file formats :

regions_nomenclature :

Text file, Text file

complete_matrix_smoothed :

Sparse Matrix, Sparse Matrix

reduced_individual_profile :

GIFTI file, GIFTI file, Texture

individual_white_mesh :

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

regions_parcellation :

GIFTI file, GIFTI file, Texture

sum_vertices_patch :

GIFTI file, GIFTI file, Texture

duplication_value_patch :

GIFTI file, GIFTI file, Texture

filtered_reduced_individual_profile :

GIFTI file, GIFTI file, Texture