mmantho

RainCloudPlots

Code and tutorials to visualise your data that is both beautiful *and* statistically valid

freesurfer

Neuroimaging analysis and visualization suite

pycwt

A Python module for continuous wavelet spectral analysis. It includes a collection of routines for wavelet transform and statistical analysis via FFT algorithm. In addition, the module also includes cross-wavelet transforms, wavelet coherence tests and sample scripts.

nltools

Python toolbox for analyzing imaging data

dartbrains

This repository is a Python package with all of the functions and python libraries required for the Dartmouth fMRI Analysis Course taught by Prof Luke Chang, PhD.

atlasreader

Python interface for generating coordinate tables and region labels from statistical MRI images

biostatmethods

Data and Code for Methods in Biostatistics in R

scilpy

The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox

Dynamic_brain_connectivity_analysis

This repository covers our developed algorithms and techniques for dynamic brain connectivity analysis.

CosanlabToolbox

General Analysis Functions

Dynamic-Brain-Network-Modularity

Temporal Stability of Modular Brain Network Organization - and its Relationship with Individual Differences (e.g., in General Intelligence)

igt-toolbox

Toolbox enabling the model-free and model-based analysis of IGT data

DynamicFunctionalConnectivity

Codes for dynamic functional connectivity on task and resting fMRI.

DynamicBC

Dynamic brain connectome analysis toolbox

ExploreDTI_scripts

This repository holds several explanations of ExploreDTI scripts

neurohcp

Human Connectome Project Interface with R

Node-Parcellation

The code to generate individualize state-specific node-level parcellations. For the original paper, see Salehi et al., "There is no single functional atlas even for a single individual: Parcellation of the human brain is state dependent." bioRxiv 2018.

system-segregation-and-graph-tools

System segregation (see Chan et al. 2014 PNAS) and RSFC brain network tools

bpd_rest

Graph analyses of BPD rest data

fmri.pipeline

R package for running full fMRI GLM analyses in FSL and other software.

Statistical-Analysis-of-fMRI-Data

Tutorial code were given by TA of the course, I just made little modification. The course syllabus can be read here: https://www.coursera.org/account/accomplishments/records/tjPs42aB7stkkvBL

Network-Parcellation-Rest

These set of functions are used to generate the analyses of the paper "An exemplar-based approach to individualized parcellation reveals the need for sex specific functional networks," Salehi et al., NeuroImage 2018

projection-scrubbing

Dynamic_fingerprints

Sample code to reproduce results of the manuscript "When makes you unique: Temporality of the human brain fingerprint" by Van De Ville et al., Science Advances 2021

Analyzing_Neural_Time_Series

python implementations of Analyzing Neural Time Series Textbook

Network-Parcellation-Tasks

These set of functions are used to generate the analyses of the paper "State-specific individualized functional networks form a predictive signature of brain state" Salehi et al., BioRxiv 2018

ndap-fa2018

neuro data analysis in python

nipype_tutorial

Learn Nipype with these tutorial notebooks - go here to see them online -->

10rules

Data, code and plots associated with 10 Simple Rules paper

TC_RC

Code associated with analysis in higher-order predictive modeling