This book was written with the goal of introducing researchers and students in a variety of research fields to the intersection of data science and neuroimaging. This book reflects our own experience of doing research at the intersection of data science and neuroimaging and it is based on our experience working with students and collaborators who come from a variety of backgrounds and have a variety of reasons for wanting to use data science approaches in their work. The tools and ideas that we chose to write about are all tools and ideas that we have used in some way in our own research. Many of them are tools that we use on a daily basis in our work. This was important to us for a few reasons: the first is that we want to teach people things that we ourselves find useful. Second, it allowed us to write the book with a focus on solving specific analysis tasks. For example, in many of the chapters you will see that we walk you through ideas while implementing them in code, and with data. We believe that this is a good way to learn about data analysis, because it provides a connecting thread from scientific questions through the data and its representation to implementing specific answers to these questions. Finally, we find these ideas compelling and fruitful. That’s why we were drawn to them in the first place. We hope that our enthusiasm about the ideas and tools described in this book will be infectious enough to convince the readers of their value.

This lesson breaks down the principles of Bayesian inference and how it relates to cognitive processes and functions like learning and perception. It is then explained how cognitive models can be built using Bayesian statistics in order to investigate how our brains interface with their environment. 

This lesson corresponds to slides 1-64 in the PDF below. 

This is a tutorial on designing a Bayesian inference model to map belief trajectories, with emphasis on gaining familiarity with Hierarchical Gaussian Filters (HGFs).

This lesson corresponds to slides 65-90 of the PDF below. 

This lecture covers a lot of post-war developments in the science of the mind, focusing first on the cognitive revolution, and concluding with living machines.

This lecture provides an overview of depression (epidemiology and course of the disorder), clinical presentation, somatic co-morbidity, and treatment options.

This lesson is part 1 of 2 of a tutorial on statistical models for neural data.

What is the difference between attention and consciousness? This lecture describes the scientific meaning of consciousness, journeys on the search for neural correlates of visual consciousness, and explores the possibility of consciousness in other beings and even non-biological structures.

This short talk addresses how to use VisuAlign to make nonlinear adjustments to 2D-to-3D registrations generated by QuickNII. 

This talk aims to provide guidance regarding the myriad labelling methods for histological image data. 

This lesson provides a cross-species comparison of neuron types in the rat and mouse brain. 

This lecture concludes the course with an outline of future directions of the field of neuroscientific research data integration. 

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 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. 

In this lesson, you will learn about data management within the Open Data Commons (ODC) framework, and in particular, how Spinal Cord Injury (SCI) data is stored, shared, and published. You will also hear about Frictionless Data, an open-source toolkit aimed at simplifying the data experience. 

This talk describes the NIH-funded SPARC Data Structure, and how this project navigates ontology development while keeping in mind the FAIR science principles. 

This talk goes over Neurobagel, an open-source platform developed for improved dataset sharing and searching. 

This video gives a brief introduction to the second session of talks from INCF's Neuroinformatics Assembly 2023. 

This brief video provides an introduction to the third session of INCF's Neuroinformatics Assembly 2023, focusing on how to streamling cross-platform data integration in a neuroscientific context. 

In this talk, you will learn about the standardization schema for data formats among two of the US BRAIN Initiative networks: the Cell Census Network (BICCN) and the Cell Atlas Network (BICAN). 

In this lesson, you will learn about the BRAIN Initiative Cell Atlas Network (BICAN) and how this project adopts a federated approach to data sharing.