This lecture covers the rationale for developing the DAQCORD, a framework for the design, documentation, and reporting of data curation methods in order to advance the scientific rigour, reproducibility, and analysis of data.
This lesson introduces the practical exercises which accompany the previous lessons on animal and human connectomes in the brain and nervous system.
This tutorial introduces pipelines and methods to compute brain connectomes from fMRI data. With corresponding code and repositories, participants can follow along and learn how to programmatically preprocess, curate, and analyze functional and structural brain data to produce connectivity matrices.
This video demonstrates each required step for preprocessing T1w anatomical data in brainlife.io.
The Allen Mouse Brain Atlas is a genome-wide, high-resolution atlas of gene expression throughout the adult mouse brain. This tutorial describes the basic search and navigation features of the Allen Mouse Brain Atlas.
The Allen Developing Mouse Brain Atlas is a detailed atlas of gene expression across mouse brain development. This tutorial describes the basic search and navigation features of the Allen Developing Mouse Brain Atlas.
This tutorial demonstrates how to use the differential search feature of the Allen Mouse Brain Atlas to find gene markers for different regions of the brain, as well as to visualize this gene expression in three-dimensional space. Differential search is also available for the Allen Developing Mouse Brain Atlas and the Allen Human Brain Atlas.
This module covers some basic anatomy such as the brain’s major divisions (brainstem, cerebellum, cerebrum), the cerebral lobes (frontal, temporal, parietal, and occipital), the central and peripheral nervous systems, theories of cognition, and brain orientation terms.
This is a hands-on tutorial on PLINK, the open source whole genome association analysis toolset. The aims of this tutorial are to teach users how to perform basic quality control on genetic datasets, as well as to identify and understand GWAS summary statistics.
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 video will document the process of uploading data into a brainlife project using ezBIDS.
This short video walks you through the steps of publishing a dataset on brainlife, an open-source, free and secure reproducible neuroscience analysis platform.
This video will document the process of visualizing the provenance of each step performed to generate a data object on brainlife.
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.
This video will document the process of creating a pipeline rule for batch processing on brainlife.
This short video shows how a brainlife.io publication can be opened from the Data Deposition page of the journal Nature Scientific Data.
In this tutorial, you will learn the basic features of uploading and versioning your data within OpenNeuro.org.
This tutorial shows how to share your data in OpenNeuro.org.
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.