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. 

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. 

This lesson is an overview of transcriptomics, from fundamental concepts of the central dogma and RNA sequencing at the single-cell level, to how genetic expression underlies diversity in cell phenotypes. 

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

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). 

This is a continuation of the talk on the cellular mechanisms of neuronal communication, this time at the level of brain microcircuits and associated global signals like those measureable by electroencephalography (EEG). This lecture also discusses EEG biomarkers in mental health disorders, and how those cortical signatures may be simulated digitally.

This lesson describes the principles underlying functional magnetic resonance imaging (fMRI), diffusion-weighted imaging (DWI), tractography, and parcellation. These tools and concepts are explained in a broader context of neural connectivity and mental health. 

Similarity Network Fusion (SNF) is a computational method for data integration across various kinds of measurements, aimed at taking advantage of the common as well as complementary information in different data types. This workshop walks participants through running SNF on EEG and genomic data using RStudio.

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. 

In this lecture, you will learn about current methods, approaches, and challenges to studying human neuroanatomy, particularly through the lense of neuroimaging data such as fMRI and diffusion tensor imaging (DTI). 

This lecture aims to help researchers, students, and health care professionals understand the place for neuroinformatics in the patient journey using the exemplar of an epilepsy patient. 

This lesson provides an overview of the current status in the field of neuroscientific ontologies, presenting examples of data organization and standards, particularly from neuroimaging and electrophysiology. 

This lesson continues from part one of the lecture Ontologies, Databases, and Standards, diving deeper into a description of ontologies and knowledg graphs. 

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

In this final lecture of the INCF Short Course: Introduction to Neuroinformatics, you will hear about new advances in the application of machine learning methods to clinical neuroscience data. In particular, this talk discusses the performance of SynthSeg, an image segmentation tool for automated analysis of highly heterogeneous brain MRI clinical scans.

This lesson describes how DataLad allows you to track and mange both your data and analysis code, thereby facilitating reliable, reproducible, and shareable research.

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).

This lecture provides an introduction to the Brain Imaging Data Structure (BIDS), a standard for organizing human neuroimaging datasets.

This tutorial covers the fundamentals of collaborating with Git and GitHub.