Main repository for the NeuroCAAS project, providing a neuroscience analysis platform using Infrastructure-as-Code (IaC).

This repository hosts all of the Code that makes up our IaC approach, with structure as described in the paper [Link to pdf here] Structure:

• paper (material specifically related to the NeuroCAAS paper)
• docs (documentation and developer guides)
• media (demo movies, slides, etc.)
• experiments (benchmarking code for NeuroCAAS on existing algorithms)
• ncap_iac (the core code of the project)
  • ncap blueprints (code representing analysis pipelines.)
  • user profiles (code representing users.)
  • protocols (code representing job management coordination analysis pipelines and users.)
  • utils (utilities to compile the above code into the corresponding infrastructure. Interfaces with troposphere and the AWS CLI)

Requires:

• AWS CLI (configured with AWS Account)
• AWS SAM CLI
• Troposphere (python package)
• Boto3 (python package)
• jq (json parser)

Coming soon:

• SSM [link]
• voltage imaging pipeline [link]
• deep graph pose [link]
• gene spot finder

Future directions:

• website-based dev portal
• "super user" API (in code)
• GUI support

To run our comparison analysis on your own infrastructure, navigate to the "experiments" directory and follow the directions found in the guide there.