The Healthy Brain Network Preprocessed Open Diffusion Derivatives (HBN-POD2)

This repository contains code, results, and the manuscript for the Healthy Brain Network Preprocessed Open Diffusion Derivatives (HBN-POD2) project.

Project Organization

.
├── LICENSE            <- BSD-3 license
├── Makefile           <- Type `make` to see the help for this command.
├── README.md          <- This README file
├── data
│   ├── derived        <- Data from third party sources.
│   └── osfstorage     <- The original, immutable data dump, populated with the `make data` command.
├── docker             <- Contains one directory per docker service
├── docker-compose.yml <- Defines the docker services that are called in the Makefile
├── figures            <- Directory for figures generated by the various Makefile commands
├── notebooks          <- Jupyter notebooks
└── paper              <- A git submodule containing the manuscript source in LaTeX

Prerequisites

Docker

To reproduce the results of the HBN-POD2 paper, you must install Docker. After that, type

make build

to build all of the required Docker images for this repository.

Data

To download the source data from OSF, type

make data

What now

Type

make

to see a list of available commands. Commands that don't start with the prefix "dl-" should work out-of-the-box. The ones that do will require credentials for Google Cloud Platform, which can be provided in the .env file. A template is provided in .env.template. So you can get started by typing

cp .env.template .env

and then editing the .env file with your favorite text editor.