GRUNECO/gruneco_rsfMRI_connectivity

Here we describe the pipeline for extracting graphs metrics from dynamic functional connectivity. It consists of several steps that are built in FSL/Bash, Python and Matlab.

GRUNECO rsfMRI connectivity based on cGICA Maps

Here we describe the pipeline for extracting graphs metrics from dynamic functional connectivity.
It consists of several steps that are built in FSL/Bash, Python and Matlab.

Here it is assumed that the rs-fMRI are preprocessed (with or without denoising), in addition to the already rs-networks extracted by cGICA.

Several scripts herein are required to run under UNIX/Linux or MacOS environment. If you use Windows, then it is recommended to run it through WSL or virtual machine.

STEPS:

1. cGICA rs-networs Denoising
2. Non-Parametric Statistical Test with SnPM/SPM12
3. Identification of statistically significant areas
4. Signal extraction (sFC and dynFC matrix)
5. Graph metrics extraction
6. Mixed ANOVA for dynFC

Pre-Installation:

• FSL

Please avoid NeuroDebian installation

• MATLAB
  • SPM12
  • SnPM13
• Python 3.x

It is recommended to run in a virtual environment

Installing requeriments

Once the virtual environment has been activated, the following requirements are installed

python3 -m pip install -r requirements.txt