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INCF Short Course: Introduction to Neuroinformatics

INCF

The emergence of data-intensive science creates a demand for neuroscience educators worldwide to deliver better neuroinformatics education and training in order to raise a generation of modern neuroscientists with FAIR capabilities, awareness of the value of standards and best practices, knowledge in dealing with big datasets, and the ability to integrate knowledge over multiple scales and methods.

 
INCF TrainingSpace

Introduction to EEGLAB

Swartz Center for Computational Neuroscience

EEGLAB is an interactive MATLAB toolbox for processing continuous and event-related EEG, MEG, and other electrophysiological data. In this course, you will learn about features incorporated into EEGLAB, including independent component analysis (ICA), time/frequency analysis, artifact rejection, event-related statistics, and several useful modes of visualization of the averaged and single-trial data. EEGLAB runs under Linux, Unix, Windows, and Mac OS X.

 
INCF TrainingSpace

Deep Learning: Optimization

NYU Center for Data Science

This module covers the concepts of gradient descent, stochastic gradient descent, and momentum. It is a part of the Deep Learning Course at NYU's Center for Data Science, a course that covered the latest techniques in deep learning and representation learning, focusing on supervised and unsupervised deep learning, embedding methods, metric learning, convolutional and recurrent nets, with applications to computer vision, natural language understanding, and speech recognition. Pr

 

Hypothes.is: A Web-Based Annotation Tool

Hypothes.is

This short course covers Hypothes.is, an annotation tool that enables users to collaboratively annotate course readings and other internet resources.

Features of Hypothes.is:

 

INCF/OCNS Working Group on Computational Neuroscience Software

INCF

This working group is a collaboration between OCNS and INCF. The group focuses on evaluating and testing computational neuroscience tools; finding them, testing them, learning how they work, and informing developers of issues to ensure that these tools remain in good shape by having communities looking after them. Since many members of the WG are themselves tool developers, we will also learn from each other and will work towards improving interoperability between related tools.

 
INCF TrainingSpace

Session 4: "Is This FAIR?": Transparency in EDI, Career Development, & Management

INCF

There is a growing recognition and adoption of open and FAIR science practices in neuroscience research. This is predominately regarded as scientific progress and has enabled significant opportunities for large, collaborative, team science. The efforts and practical work that go into creating an open and FAIR landscape extend far beyond just the science.

 

Machine Learning

Neuromatch Academy

Neuromatch Academy aims to introduce traditional and emerging tools of computational neuroscience to trainees.

 

Data Science and Neuroinformatics

INCF

Much like neuroinformatics, data science uses techniques from computational science to derive meaningful results from large complex datasets. In this session, we will explore the relationship between neuroinformatics and data science, by emphasizing a range of data science approaches and activities, ranging from the development and application of statistical methods, through the establishment of communities and platforms, and through the implementation of open-source software tools.

 

The International Brain Initiative (IBI)

INCF

The International Brain Initiative (IBI) is a consortium of the world’s major large-scale brain initiatives and other organizations with a vested interest in catalyzing and advancing neuroscience research through international collaboration and knowledge sharing. This session will introduce the IBI and the current efforts of the Data Standards and Sharing Working Group with a view to gain input from a wider neuroscience and neuroinformatics community. 

 

INCF Assembly 2022 - Training Day 2

INCF

This course contains sessions from the second day of INCF's Neuroinformatics Assembly 2022.

 

Simulating Brain Microcircuit Activity and Signals in Mental Health

Krembil Centre for Neuroinformatics

This course offers lectures on the origin and functional significance of certain electrophysiological signals in the brain, as well as a hands-on tutorial on how to simulate, statistically evaluate, and visualize such signals. Participants will learn the simulation of signals at different spatial scales, including single-cell (neuronal spiking) and global (EEG), and how these may serve as biomarkers in the evaluation of mental health data.

 

Data Management, Repositories, & Search Engines

The importance of Research Data Management in the conduct of open and reproducible science is better understood and technically supported than ever, and many of the underlying principles apply as much to everyday activities of a single researcher as to large-scale, multi-center open data sharing.

 

Simulating Brain Microcircuit Activity and Signals in Mental Health

Krembil Centre for Neuroinformatics

This course offers lectures on the origin and functional significance of certain electrophysiological signals in the brain, as well as a hands-on tutorial on how to simulate, statistically evaluate, and visualize such signals. Participants will learn the simulation of signals at different spatial scales, including single-cell (neuronal spiking) and global (EEG), and how these may serve as biomarkers in the evaluation of mental health data.

 

Programming

A number of programming languages are ubiquitous in modern neuroscience and are key to the competence, freedom, and creativity necessary in neuroscience research. This course offers lectures on the fundamentals of data science and specific neuroinformatic tools used in the investigation of brain data. Attendees of this course will be learn about the programming languages Python, R, and MATLAB, as well as their associated packages and software environments. 

 

FAIR neuroscience and EBRAINS tools for data sharing, analysis, and simulation

INCF

This workshop provides an opportunity to explore the advanced tools and techniques for data sharing, analysis, visualization, and simulation.

 

INCF Short Course: Introduction to Neuroinformatics

INCF

The emergence of data-intensive science creates a demand for neuroscience educators worldwide to deliver better neuroinformatics education and training in order to raise a generation of modern neuroscientists with FAIR capabilities, awareness of the value of standards and best practices, knowledge in dealing with big datasets, and the ability to integrate knowledge over multiple scales and methods.

 
INCF TrainingSpace

Preprocessing Data in EEGLAB

Swartz Center for Computational Neuroscience

EEGLAB is an interactive MATLAB toolbox for processing continuous and event-related EEG, MEG, and other electrophysiological data incorporating independent component analysis (ICA), time/frequency analysis, artifact rejection, event-related statistics, and several useful modes of visualization of the averaged and single-trial data.

 

Cajal Course in Computational Neuroscience

CAJAL Advanced Neuroscience Training

The CAJAL Course in Computational Neuroscience teaches the central ideas, methods, and practice of modern computational neuroscience through a combination of lectures and hands-on project work. This course is designed for graduate students and postdoctoral fellows from a variety of disciplines, including neuroscience, physics, electrical engineering, computer science, mathematics, and psychology. 

 

Applied Ethics in Machine Learning and Mental Health

Krembil Centre for Neuroinformatics

This course tackles the issue of maintaining ethical research and healthcare practices in the age of increasingly powerful technological tools like machine learning and artificial intelligence. While there is great potential for innovation and improvement in the clinical space thanks to AI development, lecturers in this course advocate for a greater emphasis on human-centric care, calling for algorithm design which takes the full intersectionality of individuals into account.

 
INCF TrainingSpace

Session 8: FAIR Data: The Role of Journals

INCF

Most neuroscience journals request authors to make their data publicly available in appropriate repositories. The requirements and policies put forward by journals vary, and the services provided for different types of data also differ considerably across repositories.