This tutorial was part of the 2018 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.

Agah Karakuzu takes a spaghetti script written in MATLAB and turns it into understandable and reusable code living happily in a powerful GitHub repository.

Basic knowledge and comfort with Command Line Interfaces (CLI) is highly beneficial for learning how to use countless neuroscience tools and acquiring programming skills.  Furthermore, CLIs are better disposed to reproducibility, automation, concatenation in pipelines, execution on multiple platforms, and remote access.

Ross Markello takes you through this general introduction to the essentials of navigating through a Bash terminal environment.  The lesson is based on the Software Carpentries "Introduction to the Shell" and was given in the context of the BrainHack School 2020.

Ross Markello provides an overview of Python applications to data analysis, demonstrating why it has become ubiquitous in data science and neuroscience.

The lesson was given in the context of the BrainHack School 2020.

Since their introduction in 2016, the FAIR data principles have gained increasing recognition and adoption in global neuroscience.  FAIR defines a set of high-level principles and practices for making digital objects, including data, software, and workflows, Findable, Accessible,  Interoperable, and Reusable.  But FAIR is not a specification;  it leaves many of the specifics up to individual scientific disciplines to define.  INCF has been leading the way in promoting, defining, and implementing FAIR data practices for neuroscience.  We have been bringing together researchers, infrastructure providers, industry, and publishers through our programs and networks.  In this session, we will hear some perspectives on FAIR neuroscience from some of these stakeholders who have been working to develop and use FAIR tools for neuroscience.  We will engage in a discussion on questions such as:  how is neuroscience doing with respect to FAIR?  What have been the successes?  What is currently very difficult? Where does neuroscience need to go?

This lecture covers FAIR atlases, from their background, their construction, and how they can be created in line with the FAIR principles.

EyeWire is a game to map the brain. Players are challenged to map branches of a neuron from one side of a cube to the other in a 3D puzzle. Players scroll through the cube and reconstruct neurons with the help of an artificial intelligence algorithm developed at Seung Lab in Princeton University. EyeWire gameplay advances neuroscience by helping researchers discover how neurons connect to process visual information. 

Mozak is a scientific discovery game about neuroscience for citizen scientists and neuroscientists alike. Players to help neuroscientists build models of brain cells and learn more about the brain through their efforts.

This module explains how neurons come together to create the networks that give rise to our thoughts. The totality of our neurons and their connection is called our connectome. Learn how this connectome changes as we learn, and computes information. We will also learn about physiological phenomena of the brain such as synchronicity that gives rise to brain waves.