Explore how to setup an epileptic seizure simulation with the TVB graphical user interface. This lesson will show you how to program the epileptor model in the brain network to simulate a epileptic seizure originating in the hippocampus. It will also show how to upload and view mouse connectivity data, as well as give a short introduction to the python script interface of TVB.
In this lesson you will learn how to simulate seizure events and epilepsy in The Virtual Brain. We will look at the paper On the Nature of Seizure Dynamics, which describes a new local model called the Epileptor, and apply this same model in The Virtual Brain. This is part 1 of 2 in a series explaining how to use the Epileptor. In this part, we focus on setting up the parameters.
This lecture goes into detailed description of how to process workflows in the virtual research environment (VRE), including approaches for standardization, metadata, containerization, and constructing and maintaining scientific pipelines.
This lesson provides an overview of how to conceptualize, design, implement, and maintain neuroscientific pipelines in via the cloud-based computational reproducibility platform Code Ocean.
In this workshop talk, you will receive a tour of the Code Ocean ScienceOps Platform, a centralized cloud workspace for all teams.
This lecture covers a wide range of aspects regarding neuroinformatics and data governance, describing both their historical developments and current trajectories. Particular tools, platforms, and standards to make your research more FAIR are also discussed.
This lecture introduces you to the basics of the Amazon Web Services public cloud. It covers the fundamentals of cloud computing and goes through both the motivations and processes involved in moving your research computing to the cloud.
This tutorial demonstrates how to work with neuronal data using MATLAB, including actional potentials and spike counts, orientation tuing curves in visual cortex, and spatial maps of firing rates.
This lesson instructs users on how to import electrophysiological neural data into MATLAB, as well as how to convert spikes to a data matrix.
In this lesson, users will learn how to appropriately sort and bin neural spikes, allowing for the generation of a common and powerful visualization tool in neuroscience, the histogram.
Followers of this lesson will learn how to compute, visualize and quantify the tuning curves of individual neurons.
This lesson demonstrates how to programmatically generate a spatial map of neuronal spike counts using MATLAB.
In this lesson, users are shown how to create a spatial map of neuronal orientation tuning.
This talk describes approaches to maintaining integrated workflows and data management schema, taking advantage of the many open source, collaborative platforms already existing.
Following the previous lesson on neuronal structure, this lesson discusses neuronal function, particularly focusing on spike triggering and propogation.
This lesson introduces some practical exercises which accompany the Synapses and Networks portion of this Neuroscience for Machine Learners course.
KnowledgeSpace is a community-based encyclopedia that links brain research concepts to data, models, and literature. It provides users with access to anatomy, gene expression, models, morphology, and physiology data from over 15 different neuroscience data/model repositories, such as Allen Institute for Brain Science and the Human Brain Project.
This lesson outlines NeuroMorpho.org, a centrally curated inventory of digitally reconstructed neurons, which contrains contributions from dozens of laboratories worldwide and is continuously updated as new morphological reconstructions are collected, published, and shared.
This is a hands-on tutorial on PLINK, the open source whole genome association analysis toolset. The aims of this tutorial are to teach users how to perform basic quality control on genetic datasets, as well as to identify and understand GWAS summary statistics.
In this third and final hands-on tutorial from the Research Workflows for Collaborative Neuroscience workshop, you will learn about workflow orchestration using open source tools like DataJoint and Flyte.