This repository provides Matlab code for reproducing figures from the paper entitled:
- Arnatkeviciute et al. (2021) 📗 'Genetic influences on hub connectivity ofthe human connectome'.
The code was written using MATLAB_R2019b. Some functions are dependent on the version and should be accommodated by versions >R2017a. For earlier versions, please replace all " with ' in importHeritabilityResultwP.m and importGENEIDfile.m functions.
Dependencies: Brain Connectivity Toolbox, Version 2017-15-01. Included in this repository.
Contact Aurina Arnatkeviciute by email.
Data files required for this project are hosted in on the associated Zenodo repository. Please download and unzip the data in the root directory.
First, add all sub-folders to the path using setupPaths() function from the root directory. This will also create a makeFigures folder.
Code to reproduce the figures is located in the generateFigures folder. Script generateFigures.m calls all the functions to plot the figures. Run the scripts from the root directory. Figures will be saved in makeFigures folder in the root directory. It takes around 15 minutes to generate all figres on a standard laptop (except for FigureS13(), which requires additional randomisations that take ~1h to complete).
Figure2_and_FigureS2() - main text: heritability and supplementary figure S2 visualising spatial distribution of most and least heritable links.
Figure3() - main text: correlated gene expression.
Figure4('energy') - main text: generative modelling (space and topology) when optimising max KS.
Figure5() - main text: generative modelling (space, topology and genes).
FigureS1() - supplementary: topological properties of the connectome.
FigureS3_S5() - supplementary: heritability-related analyses.
FigureS6_uncorrectedCGE() - supplementary: correlated gene expression without correction for distance effects.
FigureS6_S11() - supplementary: correlated gene expression related analyses.
FigureS12() - supplementary: generative modelling (space and topology) when optimising degree correlation.
FigureS13() - supplementary: heritability for rich, feeder and peripheal links where the significance is evaluated using label randomisation.
FigureS14() - supplementary: genetic variance.
TableS1() - supplementary: enrichment table.