The practical usage of The Virtual brain in its graphical user interface and via python scripts is introduced. In the graphical user interface, you are guided through its data repository, simulator, phase plane exploration tool, connectivity editor, stimulus generator and the provided analyses. The implemented iPython notebooks of TVB are presented, and since they are public, can be used for further exploration of The Virtual brain.
A brief overview of the Python programming language, with an emphasis on tools relevant to data scientists. This lecture was part of the 2018 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.
Tutorial on collaborating with Git and GitHub. This tutorial was part of the 2019 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.
Colt Steele provides a comprehensive introduction to the command line and 50 popular Linux commands. This is a long course (nearly 5 hours) but well worth it if you are going to spend a good part of your career working from a terminal, which is likely if you are interested in flexibility, power, and reproducibility in neuroscience research.
This lesson is courtesy of freeCodeCamp.
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.
Tutorial describing the basic search and navigation features of the Allen Mouse Brain Atlas
Tutorial describing the basic search and navigation features of the Allen Developing Mouse Brain Atlas
This tutorial demonstrates how to use the differential search feature of the Allen Mouse Brain Atlas to find gene markers for different regions of the brain and to visualize this gene expression in three-dimensional space. Differential search is also available for the Allen Developing Mouse Brain Atlas and the Allen Human Brain Atlas.
Panel discussion by leading scientists, engineers and philosophers discuss what brain-computer interfaces are and the unique scientific and ethical challenges they pose. hosted by Lynne Malcolm from ABC Radio National's All in the Mind program and features:
In this module you will learn the basics of Brain Computer Interface (BCI). You will read an introduction to the different technologies available, the main components and steps required for BCI, the safety and ethical issues and an overview about the future of the field.
In this modules, users will learn about the different types of neurotechnology and how each of them works. This will be done through the metaphor of going to a symphony... in your brain. Like a symphony, brain processes emerge from collections of neural activity. This video encourages us to imagine ourselves moving to different areas in the concert hall to understand where different technologies interface. Once the concert ends, we talk about underlying neural mechanisms and technology that allow researchers and innovators to interact with the brain.
This module covers a brief history of the neurotechnology industry. Join us as we explore the story of neurotech. This lesson brings the history of brain-computer interfacing to life through engaging skits and stories. We cover topics and breakthrough discoveries such as discovering that the brain is the center of consciousness and cognition, the discovery of bioelectricity, the creation of technologies that have allowed us to peer into the brain, important experiments conducted in the 20th century, and the start of commercialization and democratization of these technologies.
This module covers many types of invasive neurotechnology devices/interfaces for the central and peripheral nervous systems. Invasive neurotech devices are really important as they often provide the greatest accuracy and long-term use applicability.
This module covers many of the types of non-invasive neurotech and neuroimaging devices including Electroencephalography (EEG), Electromyography (EMG), Electroneurography (ENG), Magnetoencephalography (MEG), functional Near-Infrared Spectroscopy (fNRIs), Magnetic Resonance Imaging (MRI), Positron Emission Tomography (PET), and Computed Tomography
Neuromodulation refers to devices that influence the firing of neurons which can be useful in many medical applications. This modules covers about what neuromodulation is, how it affects the functioning of neurons, and the many forms that these devices take on, including DBS, spinal cord stimulation, tDCS, stimulatory ECoG, vagus nerve stimulation, and TMS.
This modules covers neuroprosthetic and cognitive enhancement devices that can help augment our capabilities by enhancing memory, restoring or improving our senses,
This module goes over the methods that neurotechnologists use to turn brain data into commands a computer or a machine can understand. We cover data collection, processing, filtering, analysis, how to generate an action in a device, asynchronous BCIs that use population encoding, and synchronous BCIs that use P300, SSVEP, N100, and N400 signals. A little unsure of what all those terms actually mean? No worries! That is what the module is for :)
This module covers the many things that brain-computer interfaces can and will be able to do. This includes motor neuroprosthetics like prosthetic arms, exosuits, and vehicle control, computer and machine interfacing use-cases like typing and playing video games, speech and communication applications, neurofeedback meditation and sleep devices, and BCI-driven art.
This module covers how Neurotechnology is perceived in media today. We discuss a few specific films and talk about how the perception of Neurotechnology changes with our media. Finally, we introduce a few interesting terms related to ethics and address some future issues the technology may cause.