Skip to content
/ A-MTL Public

Analysis scripts used to analyze the local and global functional connectivity of the medial temporal lobe including the amygdala ('A-MTL') described in Ruiz-Rizzo et al. (2020), NeuroImage.

Notifications You must be signed in to change notification settings

alruizzo/A-MTL

Repository files navigation

A-MTL


Analysis scripts

Description

  • Scripts used for the analyses of the results reported in

DOI:10.1016/j.neuroimage.2019.116404

  • Project information

DOI:10.17605/OSF.IO/DX7QP

  • Anatomical mask MNI space

Download the mediat temporal lobe (A-MTL) mask (.nii) used for the analyses here

Content

tissue_prob_ic_sel.sh Script that helps us determine which independent component (IC) is more likely to be noise (cerebrospinal fluid, CSF or white matter, WM) than a true network (gray matter, GM) based on the volume of each tissue compartment (for Fig. 1 of the paper)

ES_per_structure.sh Script to calculate mean and standard deviation for later effect size calculation per structure and IC using fslstats (Fig. 2B of the paper)

masks_in_fun_space.sh Script to rescale the A-MTL structure to the functional native space to calculate the temporal SNR (for the Supplement)

TSNR_AMTL.sh Script to calculate the temporal signal-to-noise-ratio for each A-MTL structure using fslstats (reported in the Supplement)

coord_max_voxel.sh Script to obtain and store the MNI coordinates of the 'peak' voxel of functional connectivity, based on the tstat image and using fslstats (Table 1 of the paper)

create_table.sh Script to create a table in .txt using the column command

slicewise_voxel_count.sh Script to count the number of voxels in each slice along the anterior-posterior axis (y-axis) for each A-MTL structure, for each IC/brain network (Fig. 4, schematics, of the paper)

About

Analysis scripts used to analyze the local and global functional connectivity of the medial temporal lobe including the amygdala ('A-MTL') described in Ruiz-Rizzo et al. (2020), NeuroImage.

Topics

Resources

Stars

Watchers

Forks