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This lecture describes how to build research workflows, including a demonstrate using DataJoint Elements to build data pipelines.

Difficulty level: Intermediate
Duration: 47:00
Speaker: : Dimitri Yatsenko

Manipulate the default connectome provided with TVB to see how structural lesions effect brain dynamics. In this hands-on session you will insert lesions into the connectome within the TVB graphical user interface (GUI). Afterwards, the modified connectome will be used for simulations and the resulting activity will be analysed using functional connectivity.

Difficulty level: Beginner
Duration: 31:22
Speaker: : Paul Triebkorn

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

Difficulty level: Beginner
Duration: 39:27
Speaker: : Subha Sivagnanam

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.

Difficulty level: Beginner
Duration: 48:22
Speaker: : Michael Feolo

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. 

Difficulty level: Intermediate
Duration: 1:03:55
Speaker: : Patrik Bey

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. 

Difficulty level: Beginner
Duration: 17:01
Speaker: : David Feng

This lesson provides an overview of how to construct computational pipelines for neurophysiological data using DataJoint.

Difficulty level: Beginner
Duration: 17:37
Speaker: : Dimitri Yatsenko

This talk describes approaches to maintaining integrated workflows and data management schema, taking advantage of the many open source, collaborative platforms already existing.

Difficulty level: Beginner
Duration: 15:15
Speaker: : Erik C. Johnson

This hands-on tutorial walks you through DataJoint platform, highlighting features and schema which can be used to build robost neuroscientific pipelines. 

Difficulty level: Beginner
Duration: 26:06
Speaker: : Milagros Marin

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. 

Difficulty level: Intermediate
Duration: 22:36
Speaker: : Daniel Xenes

This lecture provides a detailed description of how to incorporate HED annotation into your neuroimaging data pipeline. 

Difficulty level: Beginner
Duration: 33:36
Speaker: : Dung Truong

This lecture covers how to make modeling workflows FAIR by working through a practical example, dissecting the steps within the workflow, and detailing the tools and resources used at each step.

Difficulty level: Beginner
Duration: 15:14

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. 

Difficulty level: Intermediate
Duration: 1:27:18
Speaker: : Dan Felsky

This is a tutorial on using the open-source software PRSice to calculate a set of polygenic risk scores (PRS) for a study sample. Users will also learn how to read PRS into R, visualize distributions, and perform basic association analyses. 

Difficulty level: Intermediate
Duration: 1:53:34
Speaker: : Dan Felsky

This lesson contains the slides (pptx) of a lecture discussing the necessary concepts and tools for taking into account population stratification and admixture in the context of genome-wide association studies (GWAS). The free-access software Tractor and its advantages in GWAS are also discussed. 

Difficulty level: Intermediate
Duration:
Speaker: : Dan Felsky

This is a tutorial introducing participants to the basics of RNA-sequencing data and how to analyze its features using Seurat. 

Difficulty level: Intermediate
Duration: 1:19:17
Speaker: : Sonny Chen

This tutorial demonstrates how to perform cell-type deconvolution in order to estimate how proportions of cell-types in the brain change in response to various conditions. While these techniques may be useful in addressing a wide range of scientific questions, this tutorial will focus on the cellular changes associated with major depression (MDD). 

Difficulty level: Intermediate
Duration: 1:15:14
Speaker: : Keon Arbabi

This lesson provides an overview of GeneWeaver, a web application for the integrated cross-species analysis of functional genomics data to find convergent evidence from heterogeneous sources.

Difficulty level: Beginner
Duration: 1:03:26
Speaker: : Erich J. Baker

This lesson provides a demonstration of GeneWeaver, a system for the integration and analysis of heterogeneous functional genomics data.

Difficulty level: Beginner
Duration: 25:53
Speaker: :

This lecture outlines GeneNetwork.org, a group of linked data sets and tools used to study complex networks of genes, molecules, and higher order gene function and phenotypes.

Difficulty level: Beginner
Duration: 1:00:43
Speaker: : Robert Williams