Neurosynth Compose: Ecosystem for Reproducible Meta-Analyses

[jdkent]

Title

Neurosynth Compose: Ecosystem for Reproducible Meta-Analyses

Short description and the goals for the OHBM BrainHack

We are aiming to make meta-analyses more systematic, reproducible, and overall less painful with an online interface and lots of pre-ingested data for you to use freely!

Our platform now hosts over 30,000 neuroimaging papers that report coordinates, making the arduous phase of transcribing coordinates simpler than ever.

We have a number of projects to work on, whether it's your first time programming or if you're a seasoned veteran.

Novice

• Test out our sleuth file import feature (try to break it and give feedback)
• Work on a script to add DOI/PMID to the sleuth files automatically
• Use our tutorial and give feedback
• Help validate paper-extracted information from GPT

Intermediate

• write code to create figures to do some exploratory data analysis/Validation on data we've ingested.
• formalize the DOI/PMID adding script into a function in NiMARE
• profile memory consumption in running the NiMARE reports CBMA module
• add documentation to publang: interface to extract information from academic papers (https://github.com/adelavega/publang)

Advanced

• redo the cognitive atlas python package using a more modern API generator
• help create a script to extract references to papers within meta-analysis papers
• create a NIDM to NiMARE function
• Prompt Engineering/workflow design for publang to extract task information
• representing participant demographics in our database.

Link to the Project

https://github.com/neurostuff/neurostore

Image/Logo for the OHBM brainhack website

https://github.com/neurostuff/neurostore/blob/master/compose/neurosynth-frontend/public/static/synth.png

Project lead

James Kent @jdkent jdkent
Alejandro De La Vega @adelavega neurozorro
Julio Peraza @JulioAPeraza N/A

Main Hub

Seoul

Link to the Project pitch

No response

Other hubs covered by the leaders

• Seoul
• Hybrid (Asia / Pacific)
• Hybrid (Europe / Middle East / Africa)
• Hybrid (Americas)

Skills

• None
• Ran a meta-analysis before (using any technology)
• written a bash script
• read in files with python
• use plotting libraries with python
• created a pull request using git/github

Recommended tutorials for new contributors

No response

Good first issues

No response

Twitter summary

If you're interested in or learning about meta-analyses, AI, data engineering, and everything in between, come checkout Neurosynth Compose! We have projects for every skill level.

Short name for the Discord chat channel (~15 chars)

neurosynth-compose

Please read and follow the OHBM Code of Conduct

• I agree to follow the OHBM Code of Conduct during the hackathon