README.md

Degree Variability Project

Code to compare hub location and distribution across diffusion MRI preprocessing pipelines. This work has been motivated by papers and code written by Stuart Oldham and colleagues.

Installation

1. Clone this repo and add to your MATLAB path
2. Clone the helper functions here
3. Add in the dependencies BCT (the Brain Connectivity Toolbox) and Stuart Oldham's Brain Surface Visualiser plotSurfaceROIBoundary
4. Data can be downloaded from https://doi.org/10.26180/c.6352886.v1 and placed in the DATA folder

Usage

0. CalcSTRthr takes in the raw data and generates the processed data
   1. This step is optional - the processed data can be downloaded
   2. Thresholds can be adjusted here, if desired
   3. New group reconstruction algorithms can be added here, if desired
1. RunAnalysis generates summary plots of all the pipelines including heatmaps and surface area correlations
   1. This step is optional
   2. Note that this takes a long time
2. The files in ./SCRIPTS/FigureFunctions generate the figures from the paper

Compatibility

The code has been tested on versions of MATLAB from R2019b to R2021b.

See Also

• Paper (OA) available from Network Neuroscience
• Data available at https://doi.org/10.26180/c.6352886.v1
• This work follows on from work by Stuart Oldham and colleagues - see their paper, code, and data (all openly available)

Further Details

Please contact Mehul Gajwani by email or through GitHub (issue/pull request) for any further details.