This lesson describes the Neuroscience Gateway , which facilitates access and use of National Science Foundation High Performance Computing resources by neuroscientists.

This lesson gives an introduction to high-performance computing with the Compute Canada network, first providing an overview of use cases for HPC and then a hands-on tutorial. Though some examples might seem specific to the Calcul Québec, all computing clusters in the Compute Canada network share the same software modules and environments.

This talk presents an overview of CBRAIN, a web-based platform that allows neuroscientists to perform computationally intensive data analyses by connecting them to high-performance computing facilities across Canada and around the world.

The Mouse Phenome Database (MPD) provides access to primary experimental trait data, genotypic variation, protocols and analysis tools for mouse genetic studies. Data are contributed by investigators worldwide and represent a broad scope of phenotyping endpoints and disease-related traits in naïve mice and those exposed to drugs, environmental agents or other treatments. MPD ensures rigorous curation of phenotype data and supporting documentation using relevant ontologies and controlled vocabularies. As a repository of curated and integrated data, MPD provides a means to access/re-use baseline data, as well as allows users to identify sensitized backgrounds for making new mouse models with genome editing technologies, analyze trait co-inheritance, benchmark assays in their own laboratories, and many other research applications. MPD’s primary source of funding is NIDA. For this reason, a majority of MPD data is neuro- and behavior-related.

This talk highlights a set of platform technologies, software, and data collections that close and shorten the feedback cycle in research. 

Overview of Day 2 of this course.

This talk compares various sensors and resolutions for in vivo neural recordings.

This hands-on tutorial explains how to run your own Minion session in the MetaCell cloud using jupityr notebooks.

In this hands-on analysis tutorial, users will mimic a kernel crash and learn the steps to restore inputs in such a case.

This lesson will go through how to extract cells from video that has been cleaned of background noise and motion.

This final hands-on analysis tutorial walks users through the last visualization steps in the cellular data.

This lecture covers infrared LED oblique illumination for studying neuronal circuits in in vitro block-preparations of the spinal cord and brain stem.

This lecture covers the application of diffusion MRI for clinical and preclinical studies.

In this hands-on session, you will learn how to explore and work with DataLad datasets, containers, and structures using Jupyter notebooks. 

This talk covers the differences between applying HED annotation to fMRI datasets versus other neuroimaging practices, and also introduces an analysis pipeline using HED tags. 

This video shows how to use the brainlife.io interface to edit the participants' info file. This file is the ParticipantInfo.json file of the Brain Imaging Data Structure (BIDS).

This quick video presents some of the various visualizers available on brainlife.io

This video demonstrates each required step for preprocessing T1w anatomical data in brainlife.io.

Longitudinal Online Research and Imaging System (LORIS) is a web-based data and project management software for neuroimaging research studies. It is an open source framework for storing and processing behavioural, clinical, neuroimaging and genetic data. LORIS also makes it easy to manage large datasets acquired over time in a longitudinal study, or at different locations in a large multi-site study.

This talk covers the Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC), a free one-stop-shop collaboratory for science researchers that need resources such as neuroimaging analysis software, publicly available data sets, or computing power.