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.

This course consists of three lessons, each corresponding to a lightning talk given at the first day of INCF's Neuroinformatics Assembly 2023. By following along these brief talks, you will hear about topics such as open source tools for computer vision, tools for the integration of various MRI dataset formats, as well as international data governance. 

The dimensionality and size of datasets in many fields of neuroscience research require massively parallel computing power.  Fortunately, the maturity and accessibility of virtualization technologies has made it feasible to run the same analysis environments on platforms ranging from single laptop computers up to high-performance computing networks.

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:

As research methods and experimental technologies become ever more sophisticated, the amount of health-related data per individual which has become accessible is vast, giving rise to a corresponding need for cross-domain data integration, whole-person modelling, and improved precision medicine. This course provides lessons describing state of the art methods and repositories, as well as a tutorial on computational methods for data integration. 

This course includes both lectures and tutorials around the management and analysis of genomic data in clinical research and care. Participants are led through the basics of genome-wide association studies (GWAS), genotypes, and polygenic risk scores, as well as novel concepts and tools for more sophisticated consideration of population stratification in GWAS.

This course, consisting of one lecture and two workshops, is presented by the Computational Genomics Lab at the Centre for Addiction and Mental Health and University of Toronto. The lecture deals with single-cell and bulk level transciptomics, while the two hands-on workshops introduce users to transcriptomic data types (e.g., RNAseq) and how to perform analyses in specific use cases (e.g., cellular changes in major depression). 

In this course, you will learn about working with calcium-imaging data, including image processing to remove background "blur", identifying cells based on threshold spatial contiguity, time-series filtering, and principal component analysis (PCA). The MATLAB code shows data animations, capabilities of the image processing toolbox, and PCA.

This couse is the opening module for the University of Toronto's Krembil Centre for Neuroinformatics' virtual learning series Solving Problems in Mental Health Using Multi-Scale Computational Neuroscience. Lessons in this course introduce participants to the study of brain disorders, starting from elemental units like genes and neurons, eventually building up to whole-brain modelling and global activity patterns.

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

As research methods and experimental technologies become ever more sophisticated, the amount of health-related data per individual which has become accessible is vast, giving rise to a corresponding need for cross-domain data integration, whole-person modelling, and improved precision medicine. This course provides lessons describing state of the art methods and repositories, as well as a tutorial on computational methods for data integration. 

This course consists of a three-part session from the second day of INCF's Neuroinformatics Assembly 2023. The lessons describe various on-going efforts within the fields of neuroinformatics and clinical neuroscience to adjust to the increasingly vast volumes of brain data being collected and stored.

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.

Future computing systems will capitalize on our increased understanding of the brain through the use of similar architectures and computational principles. During this workshop, we bring together recent developments in this rapidly developing field of neuromorphic computing systems, and also discuss challenges ahead.

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

This course begins with the conceptual basics of machine learning and then moves on to some Python-based applications of popular supervised learning algorithms to neuroscience data. This is followed by a series of lectures that explore the history and applications of deep learning, ending with a presentation on the potential of deep learning for neuroscience applications/mis-applications.

“Computational Thinking“ refers to a mindset or set of tools used by computational or ICT specialists to describe their work. This course is intended for people outside of the ICT field to allow students to understand the way that computer specialists analyse problems and to introduce students to the basic terminology of the field.

As research methods and experimental technologies become ever more sophisticated, the amount of health-related data per individual which has become accessible is vast, giving rise to a corresponding need for cross-domain data integration, whole-person modelling, and improved precision medicine. This course provides lessons describing state of the art methods and repositories, as well as a tutorial on computational methods for data integration. 

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.

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