2024-08-28 AUG

Journal Club

ODSI Atlas [Jake]

Links:

OHDSI Software Tools: http://ohdsi.org/software-tools/
ATLAS:
- Repository: https://github.com/OHDSI/Atlas
- Layperson's documentation: Book of OHDSI
- Technical documentation: https://github.com/OHDSI/Atlas/wiki/Atlas-Setup-Guide
- Tutorials: ATLAS Tutorials [YouTube Channel]
- Demo: https://atlas-demo.ohdsi.org/
WebAPI:
- Repository: https://github.com/OHDSI/WebAPI
- Architecture Documentation: https://github.com/OHDSI/WebAPI/wiki
- API Documentation: http://webapidoc.ohdsi.org/
Google Cloud Implementation:
- Blog Article: https://cloud.google.com/blog/topics/healthcare-life-sciences/powering-open-source-healthcare-research-on-google-cloud
- ATLAS implementation: ATLAS v2.7.8 with BigQuery

Web API (OMOP ...)

https://atlas-demo.ohdsi.org/#/home

Suggested criteria: what can't be deployed in a personal machine where user has super-user control, should not be deployed in the Cloud, where security/logistics risks scale up sharply.

Jobs in progress in OHDSI: https://atlas-demo.ohdsi.org/#/jobs.

Cloud Deployment (OHDSI)

https://github.com/OHDSI/WebAPI/releases

this looks fragile:

Known Issues

analyses execution on an IBM® Netezza® OMOP CDM Data Source are failing
PLP and PLE analyses execution on ARACHNE Execution Engine are not supported after updating WebAPI to use Hydra 0.3.0 skeletons - a new release of https://github.com/odysseusinc/DockerEnv is required
incorrect Cohort counts with a Visit Detail criteria when the corresponding OMOP CDM table is empty #2129

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Hackathon

Quest feedback [Montse's]

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Serverless ARPAH

A WebOS API ecosystem populated by re-usable SDKs (modules), aiming at GenAI applications facilitating distributed learning.
A 3 week series?
How do we play it? Let's imagine it for the Yjs P2P env Praful is developing. Or for seroHub, or ...

https://github.com/epiverse/arpah

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Llama scaling laws: https://ai.meta.com/research/publications/the-llama-3-herd-of-models