Mean Individual Profile From Smoothed Matrix

Calculation of the mean individual profile by summing all vertices of the cortical region.

Description

In each matrix, the ith line corresponds to the cortical connectivity profile of the ith point of the patch, representing its connexions towards each point of the cortical surface. Then, all profiles are averaged across all patch points. So, the connectivity profile of the patch is computed.

Usage example

regions_nomenclature:            /casa/build/share/brainvisa-share-4.6/nomenclature/translation/nomenclature_desikan_freesurfer.txt

region:                          lh.inferiorparietal

complete_matrix_smoothed:        /my/path/brainvisa_db/subjects/001/diffusion/default_acquisition/default_analysis/default_tracking_session/connectivity_parcellation
                                 /avg/studyA/lh.inferiorparietal/matrix/001_studyA_lh.inferiorparietal_complete_matrix_smooth3.0_20.0to500.0mm.imas

regions_parcellation:            /my/path/freesurfer_db/group_analysis/average_group/average_brain/bh.annot.averagebrain.gii

mean_individual_profile:         /my/path/brainvisa_db/subjects/001/diffusion/default_acquisition/default_analysis/default_tracking_session/connectivity_parcellation
                                 /avg/studyA/lh.inferiorparietal/clustering/smooth3.0/001_studyA_lh.inferiorparietal_mean_profile_20.0to500.0mm.gii

erase_matrix:                    True  

Parameters

regions_nomenclature: Nomenclature ROIs File ( input )

Nomenclature of the cortical parcellation used to partition the study.
Example : Freesurfer Desikan_Killiany Atlas

region: String ( input )

The study region based on regions_nomenclature file.

complete_matrix_smoothed: Connectivity Matrix ( input )

Smoothed connectivity matrix.

regions_parcellation: ROI Texture ( input )

Cortical parcellation used to partition the study.
Example : Freesurfer Desikan_Killiany Atlas (?h.aparc.annot).

erase_matrices: Boolean ( input )

mean_individual_profile: Connectivity Profile Texture ( output )

Mean individual profile calculated from smoothed matrix.

Technical information

Toolbox : Constellation

User level : 2

Identifier : constel_mean_individual_profile

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

Supported file formats :

regions_nomenclature :

Text file, Text file

complete_matrix_smoothed :

Sparse Matrix, Sparse Matrix

regions_parcellation :

GIFTI file, GIFTI file, Texture

mean_individual_profile :

GIFTI file, GIFTI file, Texture