This lesson continues with the second workshop on reproducible science, focusing on additional open source tools for researchers and data scientists, such as the R programming language for data science, as well as associated tools like RStudio and R Markdown. Additionally, users are introduced to Python and iPython notebooks, Google Colab, and are given hands-on tutorials on how to create a Binder environment, as well as various containers in Docker and Singularity.
This talk goes over Neurobagel, an open-source platform developed for improved dataset sharing and searching.
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.
In this second part of the lecture Data Science and Reproducibility, you will learn how to apply the awareness of the intersection between neuroscience and data science (discussed in part one) to an understanding of the current reproducibility crisis in biomedical science and neuroscience.
This lecture covers the benefits and difficulties involved when re-using open datasets, and how metadata is important to the process.
This lesson provides a quick tour of some data repositories and how to download and manipulate data from them.
KnowledgeSpace (KS) is a data discoverability portal and neuroscience encyclopedia that was developed to make it easier for the neuroscience community to find publicly available datasets that adhere to the FAIR Principles and to provide an integrated view of neuroscience concepts found in Wikipedia and NeuroLex linked with PubMed and 17 of the world's leading neuroscience repositories. In short, KS provides a single point of entry where reseaerchers can search for a neuroscience concept of interest and receive results that include: i. a description of the term found in Wikipedia/NeuroLex, ii. links to publicly available datasets related to the concept of interest, and iii. up-to-date references that support the concept of interests found in PubMed. APIs are available so that developers of other neuroscience research infrastructures can integrate KS components in their infrastructures. If your repository or your favorite repository is not indexed in KS, please contact us.
In this lesson, attendees will learn about the data structure standards, specifically the Brain Imaging Data Structure (BIDS), an INCF-endorsed standard for organizing, annotating, and describing data collected during neuroimaging experiments.
This lesson gives an introduction to the Mathematics chapter of Datalabcc's Foundations in Data Science series.
This lesson serves a primer on elementary algebra.
This lesson provides a primer on linear algebra, aiming to demonstrate how such operations are fundamental to many data science.
In this lesson, users will learn about linear equation systems, as well as follow along some practical use cases.
This talk gives a primer on calculus, emphasizing its role in data science.
This lesson clarifies how calculus relates to optimization in a data science context.
This lesson covers Big O notation, a mathematical notation that describes the limiting behavior of a function as it tends towards a certain value or infinity, proving useful for data scientists who want to evaluate their algorithms' efficiency.
This lesson serves as a primer on the fundamental concepts underlying probability.
Serving as good refresher, this lesson explains the maths and logic concepts that are important for programmers to understand, including sets, propositional logic, conditional statements, and more.
This compilation is courtesy of freeCodeCamp.
This lesson provides a useful refresher which will facilitate the use of Matlab, Octave, and various matrix-manipulation and machine-learning software.
This lesson was created by RootMath.
This lecture gives an introduction to the types of glial cells, homeostasis (influence of cerebral blood flow and influence on neurons), insulation and protection of axons (myelin sheath; nodes of Ranvier), microglia and reactions of the CNS to injury.
This lecture focuses on how the immune system can target and attack the nervous system to produce autoimmune responses that may result in diseases such as multiple sclerosis, neuromyelitis, and lupus cerebritis manifested by motor, sensory, and cognitive impairments. Despite the fact that the brain is an immune-privileged site, autoreactive lymphocytes producing proinflammatory cytokines can cause active brain inflammation, leading to myelin and axonal loss.