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 is a tutorial on how to simulate neuronal spiking in brain microcircuit models, as well as how to analyze, plot, and visualize the corresponding data. 

This lesson is the first of three hands-on tutorials as part of the workshop Research Workflows for Collaborative Neuroscience. This tutorial goes over how to visualize data with Scanpy, a scalable toolkit for analyzing single-cell gene expression. 

This hands-on tutorial walks you through DataJoint platform, highlighting features and schema which can be used to build robost neuroscientific pipelines. 

In this third and final hands-on tutorial from the Research Workflows for Collaborative Neuroscience workshop, you will learn about workflow orchestration using open source tools like DataJoint and Flyte. 

In this hands-on session, you will learn how to explore and work with DataLad datasets, containers, and structures using Jupyter notebooks. 

This lesson introduces some practical exercises which accompany the Synapses and Networks portion of this Neuroscience for Machine Learners course. 

In this lesson, you will learn about one particular aspect of decision making: reaction times. In other words, how long does it take to take a decision based on a stream of information arriving continuously over time?

This lesson provides a brief overview of the Python programming language, with an emphasis on tools relevant to data scientists.

This lesson gives a general introduction to the essentials of navigating through a Bash terminal environment.  The lesson is based on the Software Carpentries "Introduction to the Shell" and was given in the context of the BrainHack School 2020.

This lesson covers Python applications to data analysis, demonstrating why it has become ubiquitous in data science and neuroscience. The lesson was given in the context of the BrainHack School 2020.

An introduction to data management, manipulation, visualization, and analysis for neuroscience. Students will learn scientific programming in Python, and use this to work with example data from areas such as cognitive-behavioral research, single-cell recording, EEG, and structural and functional MRI. Basic signal processing techniques including filtering are covered. The course includes a Jupyter Notebook and video tutorials.

This lesson contains both a lecture and a tutorial component. The lecture (0:00-20:03 of YouTube video) discusses both the need for intersectional approaches in healthcare as well as the impact of neglecting intersectionality in patient populations. The lecture is followed by a practical tutorial in both Python and R on how to assess intersectional bias in datasets. Links to relevant code and data are found below. 

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. 

This lecture provides an introduction to Plato’s concept of rationality and Aristotle’s concept of empiricism, and the enduring discussion between rationalism and empiricism to this day.

This lecture goes into further detail about the hard problem of developing a scientific discipline for subjective consciousness.

This lesson gives a brief introduction to the course Neuroscience for Machine Learners (Neuro4ML). 

This lesson briefly goes over the outline of the Neuroscience for Machine Learners course. 

This lesson covers the history of neuroscience and machine learning, and the story of how these two seemingly disparate fields are increasingly merging. 

In this lesson, you will learn about the current challenges facing the integration of machine learning and neuroscience.