In this lesson, while learning about the need for increased large-scale collaborative science that is transparent in nature, users also are given a tutorial on using Synapse for facilitating reusable and reproducible research.
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 lesson provides an overview of how to construct computational pipelines for neurophysiological data using DataJoint.
This talk describes approaches to maintaining integrated workflows and data management schema, taking advantage of the many open source, collaborative platforms already existing.
This hands-on tutorial walks you through DataJoint platform, highlighting features and schema which can be used to build robost neuroscientific pipelines.
This lesson provides an introduction to the DataLad, a free and open source distributed data management system that keeps track of your data, creates structure, ensures reproducibility, supports collaboration, and integrates with widely used data infrastructure.
This lesson introduces several open science tools like Docker and Apptainer which can be used to develop portable and reproducible software environments.
This lecture provides a detailed description of how to incorporate HED annotation into your neuroimaging data pipeline.
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.
Following the previous lesson on neuronal structure, this lesson discusses neuronal function, particularly focusing on spike triggering and propogation.
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 talk highlights a set of platform technologies, software, and data collections that close and shorten the feedback cycle in research.
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.
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 lesson provides an overview of the database of Genotypes and Phenotypes (dbGaP), which was developed to archive and distribute the data and results from studies that have investigated the interaction of genotype and phenotype in humans.
This tutorial provides instruction on how to simulate brain tumors with TVB (reproducing publication: Marinazzo et al. 2020 Neuroimage). This tutorial comprises a didactic video, jupyter notebooks, and full data set for the construction of virtual brains from patients and health controls.
The tutorial on modelling strokes in TVB includes a didactic video and jupyter notebooks (reproducing publication: Falcon et al. 2016 eNeuro).
The lecture provides an overview of the core skills and practical solutions required to practice reproducible research.
This lesson introduces population models and the phase plane, and is part of the The Virtual Brain (TVB) Node 10 Series, a 4-day workshop dedicated to learning about the full brain simulation platform TVB, as well as brain imaging, brain simulation, personalised brain models, and TVB use cases.