This document describes OpenNeuro, a free online platform for sharing and analyzing neuroimaging data. OpenNeuro allows users to upload, manage, and share brain imaging data using the Brain Imaging Data Structure. It also enables running predefined analysis pipelines called Apps on uploaded data using software containers. This facilitates reproducible analysis. The document discusses OpenNeuro's features, available analysis pipelines, open source components, and vision for facilitating data sharing and reproducibility in neuroimaging research.

1. Krzysztof J. Gorgolewski, Oscar Esteban, Gunnar Schaefer,
Brian A. Wandell, and Russell A. Poldrack
a free online platform for sharing and
analysis of neuroimaging data

2. MR Data Analysis - theory
1. Perform quality control
2. Develop a pipeline
3. Run the pipeline
4. Share the data
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4. 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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5. 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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6. 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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7. 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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9. 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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10. Demo
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11. Available Pipelines
• FMRIPREP
• MRIQC
• C-PAC
• FreeSurfer
• ndmg
• SPM
Coming soon:
• QAP
• OPPNI
• automatic analysis
• MAGeTBrain
• TRACULA
• BROCCOLI
• BARACUS
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12. Under the hood
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13. BIDS Apps
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Gorgolewski et al. 2017

14. 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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16. Reproducibility
Data snapshots + software containers
==
reproducibility
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17. 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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18. Future direction
• Running apps on outputs of other apps
• Higher level analyses
• More computational backend
• CBRAIN
• OSG
• XSEDE
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19. Want to deploy your workflow on
OpenNeuro?
Get in touch!
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Poldracklab
bids-apps.neuroimaging.org