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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.

Difficulty level: Beginner
Duration: 1:16:04

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. 

Difficulty level: Beginner
Duration: 52:26

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

Difficulty level: Beginner
Duration: 58:05

This video will document the process of uploading data into a brainlife project using ezBIDS.

Difficulty level: Beginner
Duration: 6:15
Speaker: :

This short video walks you through the steps of publishing a dataset on brainlife, an open-source, free and secure reproducible neuroscience analysis platform.

Difficulty level: Beginner
Duration: 1:18
Speaker: :

This video will document the process of visualizing the provenance of each step performed to generate a data object on brainlife.

Difficulty level: Beginner
Duration: 0:21
Speaker: :

This video will document the process of downloading and running the "reproduce.sh" script, which will automatically run all of the steps to generate a data object locally on a user's machine.

Difficulty level: Beginner
Duration: 3:44
Speaker: :

This brief video walks you through the steps necessary when creating a project on brainlife.io. 

Difficulty level: Beginner
Duration: 1:45
Speaker: :

This brief video rus through how to make an accout on brainlife.io.

Difficulty level: Beginner
Duration: 0:30
Speaker: :

This short video shows how a brainlife.io publication can be opened from the Data Deposition page of the journal Nature Scientific Data.

Difficulty level: Beginner
Duration: 2:25
Speaker: :

This short video shows how data in a brainlife.io publication can be opened from a DOI inside a published article. The video provides an example of how the DOI deposited on the journal can be opened with a web browser to redirect to the associated data publication on brainlife.io.

Difficulty level: Beginner
Duration: 2:18
Speaker: :

In this tutorial, you will learn the basic features of uploading and versioning your data within OpenNeuro.org.

Difficulty level: Beginner
Duration: 5:36
Speaker: : OpenNeuro

This tutorial shows how to share your data in OpenNeuro.org.

Difficulty level: Beginner
Duration: 1:22
Speaker: : OpenNeuro

Following the previous two tutorials on uploading and sharing data with OpenNeuro.org, this tutorial briefly covers how to run various analyses on your datasets.

Difficulty level: Beginner
Duration: 2:26
Speaker: : OpenNeuro

This tutorial is part 1 of 2. It aims to provide viewers with an understanding of the fundamentals of R tool. Note: parts 1 and 2 of this tutorial are part of the same YouTube video; part 1 ends at 17:42. 

Difficulty level: Beginner
Duration: 17:42
Speaker: : Edureka

Research Resource Identifiers (RRIDs) are ID numbers assigned to help researchers cite key resources (e.g., antibodies, model organisms, and software projects) in biomedical literature to improve the transparency of research methods.

Difficulty level: Beginner
Duration: 1:01:36
Speaker: : Maryann Martone

This demonstration walks through how to import your data into MATLAB.

Difficulty level: Beginner
Duration: 6:10
Speaker: : MATLAB®

This lesson provides instruction regarding the various factors one must consider when preprocessing data, preparing it for statistical exploration and analyses. 

Difficulty level: Beginner
Duration: 15:10
Speaker: : MATLAB®

This tutorial outlines, step by step, how to perform analysis by group and how to do change-point detection.

Difficulty level: Beginner
Duration: 2:49
Speaker: : MATLAB®

This tutorial walks through several common methods for visualizing your data in different ways depending on your data type.

Difficulty level: Beginner
Duration: 6:10
Speaker: : MATLAB®