Welcome to my BIDS Workshop!#
I am Steven Meisler, a Postdoctoral Fellow at the University of Pennsylvania working in Ted Satterthwaite’s lab. I really like helping people do neuroimaging better (and do not like seeing research done “wrong” or irreproducibly). I’m thrilled to share these insights with you!
This workshop is part of my ReproNim/INCF Fellowship. Here, we’ll dive deep into modern neuroimaging workflows with an emphasis on the following tools and standards:
BIDS (Brain Imaging Data Structure): Learn how to organize and share your neuroimaging data in a standardized, community-driven format.
CuBIDS: Explore this tool for validating, inspecting, and curating BIDS datasets to ensure compliance with the standard.
BABS (BIDS-App BootStrap): Discover how to leverage this tool to automate batch processing, streamlining the setup of advanced BIDS-Apps workflows.
fMRIprep+XCP_D, QSIPrep+QSIRecon: Get hands-on experience with these state-of-the-art preprocessing pipelines designed for functional and diffusion MRI data, respectively.
What to Expect#
Interactive Tutorials: Engage in hands-on exercises where you will process sample datasets using real neuroimaging pipelines.
Best Practices: Learn the strategies that help prevent common errors and pitfalls, ensuring that your research is both robust and reproducible.
Cluster-Specific Examples: While some code snippets are tailored for the Ohio State University computing cluster, the general processes are designed to be adaptable to nearly any environment.
Discussion and Collaboration: This workshop isn’t just a series of lectures—it’s a forum for questions, troubleshooting, and sharing insights with fellow researchers.
Who Should Attend?#
This course is designed for researchers, graduate students, technicians, and anyone interested in neuroimaging data processing. Whether you are new to the field or looking to refine your current workflows, you’ll find valuable content that elevates your research practices.
Prerequisites#
While prior experience with the command line, Python programming, and basic neuroimaging concepts is beneficial, the workshop is structured to accommodate various skill levels. Supplementary resources and guidance will be provided throughout the course.
I look forward to exploring the world of neuroimaging data with you, and to empowering you with the tools and best practices needed to conduct more reproducible, efficient, and high-quality research.