Reproducible Brains: An Introduction to Open Network Neuroscience in Python

[mozfest-bot]

[ UUID ] a8ea9f94-7c00-4d32-9618-3e0378d70f74

[ Session Name ] Reproducible Brains: An Introduction to Open Network Neuroscience in Python [ Primary Space ] Open Innovation

[ Submitter's Name ] Isla Staden [ Submitter's Affiliated Organisation ] The Alan Turing Institute for Data Science [ Submitter's Github ] @Islast

[ Additional facilitators ] Kirstie Whitaker

What will happen in your session?

We will guide participants through a hands on reproduction of the analysis of a network neuroscience paper (Whitaker, Vertes et al, 2016). We will use openly available data and code and will, hopefully, arrive at the same conclusions as the published work. I will introduce the Brain Networks in Python toolkit (https://github.com/WhitakerLab/BrainNetworksInPython) and discuss the areas that need to be developed to ensure this software is useful for the open science community. The session will end by brainstorming the interoperability of the Brain Networks in Python software with other open source projects in network visualisation (eg Cytoscape js; http://js.cytoscape.org), the docker-powered Brain Imaging Data Structure Apps (http://bids-apps.neuroimaging.io) or novel network measures (https://github.com/mwshinn/versatility).

What is the goal or outcome of your session?

We have three specific goals for our session, tailored to the experience and background of our participants. The following three categories are overlapping and non-exhaustive!

For neuroscience or network science newbies, we will demonstrate the power of understanding the brain as a network using graph theory.

For researchers, we will motivate the importance of working reproducibly from the beginning of a project. We will also discuss the challenges associated with reproducible research and brainstorm ways to overcome these barriers.

For developers (at any level of expertise), we will welcome them into the Brain Networks in Python community and orient them to the open development on GitHub, ensuring they know where to find our guidelines for contributing, roadmap and open issues.

If your session requires additional materials or electronic equipment, please outline your needs.

We do not need any additional materials beyond post-it notes, pens and papers, and a projector. We will provide our own laptop and all tutorial materials wil be available online.

Time needed

60 mins

[KirstieJane]

[ Facilitator 1 Name ] Isla Staden [ Facilitator 1 Github ] @islast
[ Facilitator 1 Twitter ] NA [ Facilitator 2 Name ] Kirstie Whitaker [ Facilitator 2 Github ] @KirstieJane [ Facilitator 2 Twitter ] @kirstie_j

Requirements

[seantma]

@KirstieJane Will this session be streamed for attendees outside of London? I look forward learning more about your Brain networks in Python development!

[KirstieJane]

Hi @seantma - no - there's no streaming unfortunately (it will be really noisy and busy!!) Check out https://github.com/WhitakerLab/BrainNetworksInPython for updates though!