Data and code for "Functional organization of the human visual system at birth and across late gestation"

This repository contains the data and code for the paper "Functional organization of the human visual system at birth and across late gestation" by Vlad Ayzenberg and Michael Arcaro.

Figures and Results

All results are reported in the paper and the supplementary materials. The code for generating the figures is available in the analysis directory in the following Jupyter notebooks:

within_infant_plots.ipynb - Plots describing infant visual organization, including: areaalization, pathway grouping, and hiearchical structure

maturity_plots.ipynb - Plots describing the similarity between neonates and adult

visualize_neural_data.ipynb - Plots visualizing the MDS embeddings of the infant and adult data

Summary files for the analyses are available in the results directory.

Registration

The surface based registration pipeline can be executed using the registratio_pipeline.py script. This script will perform the following steps:

1. Brain extraction and preprocessing - Prepares anatomical and functional data
2. Surface-based registration - Registers individual surfaces to fsaverage template
3. Atlas projection - Projects atlas from template to individual anatomy
4. Space transformations - Transforms atlases to functional/diffusion spaces
5. Data extraction - Extracts timeseries or connectivity data

For more details, see: https://github.com/arcaro-lab/dhcp_registration