skill-epidemiology-implementation

Implementation skill for R-based epidemiology analysis

438 stars

Best use case

skill-epidemiology-implementation is best used when you need a repeatable AI agent workflow instead of a one-off prompt.

Implementation skill for R-based epidemiology analysis

Teams using skill-epidemiology-implementation should expect a more consistent output, faster repeated execution, less prompt rewriting.

When to use this skill

You want a reusable workflow that can be run more than once with consistent structure.

When not to use this skill

You only need a quick one-off answer and do not need a reusable workflow.
You cannot install or maintain the underlying files, dependencies, or repository context.

Installation

Claude Code / Cursor / Codex

$curl -o ~/.claude/skills/skill-epidemiology-implementation/SKILL.md --create-dirs "https://raw.githubusercontent.com/benbrastmckie/nvim/main/.claude/extensions/epidemiology/skills/skill-epidemiology-implementation/SKILL.md"

Manual Installation

Download SKILL.md from GitHub
Place it in .claude/skills/skill-epidemiology-implementation/SKILL.md inside your project
Restart your AI agent — it will auto-discover the skill

How skill-epidemiology-implementation Compares

Feature / Agent	skill-epidemiology-implementation	Standard Approach
Platform Support	Not specified	Limited / Varies
Context Awareness	High	Baseline
Installation Complexity	Unknown	N/A

Frequently Asked Questions

What does this skill do?

Implementation skill for R-based epidemiology analysis

Where can I find the source code?

You can find the source code on GitHub using the link provided at the top of the page.

SKILL.md Source

# Epidemiology Implementation Skill

Routes epidemiology implementation tasks to `epidemiology-implementation-agent`.

## Usage

Invoked by orchestrator when task language is `epidemiology` or `r` and operation is implementation.

## Agent

- **Agent**: epidemiology-implementation-agent
- **Model**: opus

## Context

- R Packages: EpiModel, epidemia, EpiNow2, EpiEstim
- Stan/Bayesian Modeling
- Statistical Patterns: Regression, Survival, Time-series
- Data Visualization: ggplot2, survminer

---

## MUST NOT (Postflight Boundary)

After the agent returns, this skill MUST NOT:

1. **Edit R files** - All R/epidemiology work is done by agent
2. **Run R scripts/tests** - Verification is done by agent
3. **Analyze or grep source** - Analysis is agent work
4. **Write summary/reports** - Artifact creation is agent work

The postflight phase is LIMITED TO:
- Reading agent metadata file
- Updating state.json via jq
- Updating TODO.md status marker via Edit
- Linking artifacts in state.json
- Git commit
- Cleanup of temp/marker files

Reference: @.claude/context/standards/postflight-tool-restrictions.md