JuliaHealth / JuliaHealth/HealthSampleData.jl

[FEATURE] Create 10K OMOP CDM Patient Sample

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enhancement help wanted
Dominant language
Julia
Stars
2
Forks
2
PR merge metrics
No merged PRs in 30d

Description

We need to create a 5K OMOP CDM patient sample for HealthSampleData. This is a rather complex process but can be accomplished in the following steps:

That is the overall process but rather complex. Happy to support each step along the way.

Contributor guide

No contributing guide indexed for this repository

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by reviewing the Synthea v3.0.0 CSV export instructions and the ETL-Synthea tutorial linked in the issue. Set up PostgreSQL, generate the requested synthetic patient data, load it with the Athena vocabularies, and export the result to SQLite. Done means the SQLite export is shared with @TheCedarPrince; resolve whether the target is 5K or 10K patients first.

Written by the indexing model from the issue text.

Assessment

Tech stack
java, postgresql, r, sqlite
Domain
data, databases, devops, infrastructure
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
25/100

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