get_parcel_atlas: Get parcel-based structural connectivity

In jdwor/LQT: Lesion Quantification Toolkit

Get parcel-based structural connectivity

Description

This function computes parcel-based direct structural connectivity measures using an MNI-registered brain parcellation and the curated HCP-842 structural connectome template described in Yeh et al., (2018 - NeuroImage)

Usage

get_parcel_atlas(cfg)

Arguments

cfg	a pre-made cfg structure (as list object).

Value

An .RData file with the suffix .connectivity.RData, which contains the structural connection matrix (connectivity); an .RData file with the suffix .network_measures.RData, which contains various graph measures for the SC matrix; a .txt file with the suffix .connectogram.txt, which contains a connectogram that can be viewed on http://mkweb.bcgsc.ca/tableviewer/visualize/ by checking the two size options in step 2A (col with row size, row with col size); a .tdi.nii.gz file named the same way as the .trk.gz file, which contains a nifti image with track density imaging (TDI) values at each voxel. It is essentially a way of converting the .trk.gz file into voxel space. Higher values indicate higher streamline densities at each voxel.

jdwor/LQT documentation built on Nov. 21, 2023, 4:34 p.m.