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This lecture focuses on where and how Jupyter notebooks can be used most effectively for education

Difficulty level: Beginner
Duration: 34:53
Speaker: : Thomas Kluyver.

JupyterHub is a simple, highly extensible, multi-user system for managing per-user Jupyter Notebook servers, designed for research groups or classes. This lecture covers deploying JupyterHub on a single server, as well as deploying with Docker using GitHub for authentication.

Difficulty level: Beginner
Duration: 1:36:27
Speaker: : Thomas Kluyver.

The Virtual Brain is an open-source, multi-scale, multi-modal brain simulation platform. In this lesson, you get introduced to brain simulation in general and to The Virtual brain in particular. Prof. Ritter will present the newest approaches for clinical applications of The Virtual brain - that is, for stroke, epilepsy, brain tumors and Alzheimer’s disease - and show how brain simulation can improve diagnostics, therapy and understanding of neurological disease.

Difficulty level: Beginner
Duration: 1:35:08
Speaker: : Petra Ritter

The concept of neural masses, an application of mean field theory, is introduced as a possible surrogate for electrophysiological signals in brain simulation. The mathematics of neural mass models and their integration to a coupled network are explained. Bifurcation analysis is presented as an important technique in the understanding of non-linear systems and as a fundamental method in the design of brain simulations. Finally, the application of the described mathematics is demonstrated in the exploration of brain stimulation regimes.

Difficulty level: Beginner
Duration: 1:49:24
Speaker: : Andreas Spiegler

The simulation of the virtual epileptic patient is presented as an example of advanced brain simulation as a translational approach to deliver improved results in clinics. The fundamentals of epilepsy are explained. On this basis, the concept of epilepsy simulation is developed. By using an iPython notebook, the detailed process of this approach is explained step by step. In the end, you are able to perform simple epilepsy simulations your own.

Difficulty level: Beginner
Duration: 1:28:53
Speaker: : Julie Courtiol

The practical usage of The Virtual brain in its graphical user interface and via python scripts is introduced. In the graphical user interface, you are guided through its data repository, simulator, phase plane exploration tool, connectivity editor, stimulus generator and the provided analyses. The implemented iPython notebooks of TVB are presented, and since they are public, can be used for further exploration of The Virtual brain.

Difficulty level: Beginner
Duration: 1:12:24
Speaker: : Paul Triebkorn

A brief overview of the Python programming language, with an emphasis on tools relevant to data scientists. This lecture 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.

Difficulty level: Beginner
Duration: 1:16:36
Speaker: : Tal Yarkoni

Tutorial on collaborating with Git and GitHub. This tutorial was part of the 2019 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.

Difficulty level: Intermediate
Duration: 2:15:50
Speaker: : Elizabeth DuPre

Learn how to create a standard extracellular electrophysiology dataset in NWB using Python

Difficulty level: Intermediate
Duration: 45:46
Speaker: : Ryan Ly

Learn how to create a standard calcium imaging dataset in NWB using Python

Difficulty level: Intermediate
Duration: 31:04
Speaker: : Ryan Ly

Learn how to create a standard intracellular electrophysiology dataset in NWB

Difficulty level: Intermediate
Duration: 20:23
Speaker: : Pamela Baker

Learn how to use the icephys-metadata extension to enter meta-data detailing your experimental paradigm

Difficulty level: Intermediate
Duration: 27:18
Speaker: : Oliver Ruebel

Learn how to build and share extensions in NWB

Difficulty level: Advanced
Duration: 20:29
Speaker: : Ryan Ly

Learn how to build custom APIs for extension

Difficulty level: Advanced
Duration: 25:40
Speaker: : Andrew Tritt

Learn how to handle writing very large data in PyNWB

Difficulty level: Advanced
Duration: 26:50
Speaker: : Andrew Tritt

Learn how to create a standard extracellular electrophysiology dataset in NWB using MATLAB

Difficulty level: Intermediate
Duration: 45:46
Speaker: : Ben Dichter

Learn how to create a standard calcium imaging dataset in NWB using MATLAB

Difficulty level: Intermediate
Duration: 39:10
Speaker: : Ben Dichter

Learn how to create a standard intracellular electrophysiology dataset in NWB

Difficulty level: Intermediate
Duration: 20:22
Speaker: : Pamela Baker

Learn how to handle writing very large data in MatNWB

Difficulty level: Advanced
Duration: 16:18
Speaker: : Ben Dichter

Overview of the Braintorm package for analyzing extracellular electrophysiology, including preprocessing, spike sorting, trial alignment, and spectrotemporal decomposition

Difficulty level: Intermediate
Duration: 47:47