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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
Course:

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

Difficulty level: Beginner
Duration: 02:08:19
Speaker: :
Course:

A quick walkthrough the Tidyverse, an "opinionated" collection of R packages designed for data science.  Includes the use of readr, dplyr, tidyr, and ggplot2.

Difficulty level: Beginner
Duration:
Speaker: :

In this presentation by the OHBM OpenScienceSIG, Tom Shaw and Steffen Bollmann cover how containers can be useful for running the same software on different platforms and sharing analysis pipelines with other researchers. They demonstrate how to build docker containers from scratch, using Neurodocker, and cover how to use containers on an HPC with singularity.

 

 

Difficulty level: Beginner
Duration: 01:21:59

Serving as good refresher, Shawn Grooms explains the maths and logic concepts that are important for programmers to understand, including sets, propositional logic, conditional statements, and more.

 

This compilation is courtesy of freeCodeCamp.

Difficulty level: Beginner
Duration: 01:00:07
Speaker: :

Linear algebra is the branch of mathematics concerning linear equations such as linear functions and their representations through matrices and vector spaces. As such, it underlies a huge variety of analyses in the neurosciences.  This lesson provides a useful refresher which will facilitate the use of Matlab, Octave, and various matrix-manipulation and machine-learning software.

 

This lesson was created by RootMath.

Difficulty level: Beginner
Duration: 01:21:30
Speaker: :

This module explores sensation in the brain: what organs are involved, sensory pathways, processing centers, and theories of integration. We cover sensory transduction, vision, audition olfaction, gustation, and somatosensation.

Difficulty level: Beginner
Duration: 7:17
Speaker: : Colin Fausnaught

This module covers how the brain interacts with the world through motor movements. Motor movements underlie so much of our functioning, our speech, the opening and closing of our eyes, and the beating of our hearts. We’ll learn about areas of the brain involved in movement and some of its pathways.

Difficulty level: Beginner
Duration: 5:00
Speaker: : Harrison Canning

This module covers the structure and function of the neuron, its components and mechanisms, action potentials, and the many glial cells that support it.

Difficulty level: Beginner
Duration: 8:31
Speaker: : Colin Fausnaught

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.

Difficulty level: Beginner
Duration: 7:13
Speaker: : Harrison Canning

Introduction to the types of glial cells, homeostasis (influence of cerebral blood flow and influence on neurons), insulation and protection of axons (myelin sheath; nodes of Ranvier), microglia and reactions of the CNS to injury.

Difficulty level: Beginner
Duration: 40:32

NWB: An ecosystem for neurophysiology data standardization

Difficulty level: Beginner
Duration: 29:53
Speaker: : Oliver Ruebel

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

Difficulty level: Intermediate
Duration: 23:10
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