brain organization analysis scripts

This repository contains different scripts that exemplify working with brain organization or (potentially) try to replicate previous findings. [work in progress]

MRI Data Cheet Sheet

This file includes broad descriptions of the most commonly used file types Nifti, Cifti and Gifti, usage of some python libraries (mostly nibabel, nilearn), the connectome workbench (mostly for data from the human connectome project (HCP)), FSL and rarely freesurfer and AFNI.

Plotting Allen Brain Atlas human gene expression data

using the abagen python library & a surface atlas

Jupyter Notebook: ipynb, html