a free online platform for sharing and

analysis of neuroimaging data

Krzysztof J. Gorgolewski, Oscar Esteban, Gunnar Schaefer,
Brian A. Wandell, and Russell A. Poldrack
MR Data Analysis - theory
1. Perform quality control

2. Develop a pipeline

3. Run the pipeline

4. Share the data

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MR Data Analysis - theory
1. Perform quality control

2. Develop a reproducible pipeline

3. Run the pipeline

4. Share the data

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MR Data Analysis - reality
1. Perform quality control
• Too much work to look at all images. I’m sure it’s perfect.
2. Develop a reproducible pipeline
• Limited to tools I know, reproducibility too difficult.
3. Run the pipeline
• Let’s skip running FreeSurfer, takes too much time on my laptop.
4. Share the data
• So what do I gain from this?

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MR Data Analysis - vision
1. Perform quality control

2. Develop a reproducible pipeline

3. Run the pipeline

4. Share the data

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What is OpenNeuro?
• Science as a Service platform
• Similar to CBRAIN, MRI Cloud, Mint, and Flywheel
• Evolution of OpenfMRI.org
• Upload, manage, and share your data
• Based on Brain Imaging Data Structure
• Immutable dataset snapshots

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What is OpenNeuro?
• Science as a Service platform
• Similar to CBRAIN, MRI Cloud, Mint, and Flywheel
• Evolution of OpenfMRI.org
• Upload, manage, and share your data
• Based on Brain Imaging Data Structure
• Immutable dataset snapshots
• Run predefined analyses – Apps
• Based on BIDS Apps framework
• Each workflow captured in a software container

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Demo

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Available Pipelines
• FMRIPREP Coming soon:
• MRIQC • QAP
• C-PAC • OPPNI
• FreeSurfer • automatic analysis
• MAGeTBrain
• ndmg
• TRACULA
• SPM • BROCCOLI
• BARACUS

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Under the hood

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BIDS Apps
Gorgolewski et al. 2017

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Open Source
• All platform components are open source and
reusable:
• Embeddable BIDS Validator
• BIDS Apps
• Frontend
• AWS based execution engine

github.com/poldracklab
github.com/BIDS-Apps

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Reproducibility

Data snapshots + software containers

==
reproducibility

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Incentive for sharing data

OpenNeuro is free to use by anyone

under the agreement that the data will be made
publicly available after 18 months.

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Future direction
• Running apps on outputs of other apps
• Higher level analyses
• More computational backend
• CBRAIN
• OSG
• XSEDE

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Want to deploy your workflow on
OpenNeuro?
Get in touch!

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Poldracklab

bids-apps.neuroimaging.org

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