Agent skill

Ebm Calculator

by aipoch in aipoch/medical-research-skills

Evidence-Based Medicine diagnostic test calculator. An agent skill from aipoch/medical-research-skills.

MITAuto-check passed

Install Ebm Calculator

skills CLI
$ npx skills add aipoch/medical-research-skills --skill ebm-calculator -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI
$ gh skill install aipoch/medical-research-skills ebm-calculator --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy
$ git clone --depth 1 https://github.com/aipoch/medical-research-skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/scientific-skills/Other/ebm-calculator .claude/skills/ebm-calculator && rm -rf skills-src

Use ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.

Claude Code skills documentation · loads skills from .claude/skills/

Facts

Skill name
ebm-calculator
GitHub stars
2k
Token cost
~1.7k tokens
SKILL.md length
738 words
Files
5 (incl. scripts, references)
Skills in repo
578
Repo updated
First seen
Licence
MIT

At a glance

Evidence-Based Medicine diagnostic test calculator. An agent skill from aipoch/medical-research-skills.

  • Works in 7 steps: Identify calculation mode: Determine… → Collect required parameters → Validate inputs: Check that all counts… → …
  • SKILL.md covers Quick Check, Audit-Ready Commands, When to Use and Workflow, plus 12 more sections
  • Runs Python scripts from its folder; calls python

What it does

Ebm Calculator is an agent skill from aipoch/medical-research-skills. Evidence-Based Medicine diagnostic test calculator. Computes sensitivity, specificity, PPV, NPV, likelihood ratios, NNT, and pre/post-test probability.

Its SKILL.md is about 1.7k tokens, which your agent loads only when the skill is triggered. The skill folder holds 6 other files, including scripts and reference files (for example `POLISH_CHANGELOG.md`, `eval_report_ebm-calculator_result.json` and `references/guidelines.md`).

The repository describes itself as: Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing. The licence is MIT.

Example prompts

  • “/ebm-calculator”

Requirements

  • Python 3

Workflow steps

7 steps, taken from the first numbered list in SKILL.md.

  1. Identify calculation mode: Determine mode from user request — diagnostic (sensitivity/specificity/PPV/NPV/LR), nnt (number needed to…
  2. Collect required parameters
  3. Validate inputs: Check that all counts are non-negative integers, rates are between 0 and 1, and denominators are not zero. If invalid…
  4. Checkpoint: Display input summary to user for confirmation before computing results.
  5. Compute results: Execute calculations per mode. Include interpretation string (e.g., "LR+ of 10 strongly rules in disease").
  6. Output: Return structured JSON with computed metrics and interpretation.
  7. Fallback: If a required parameter is missing, output a template showing which fields are needed with example values.

What it can do on your machine

Read from SKILL.md and the folder at commit 686e09d. It shows what the files ask for, not the result of running them.

  • Tool permissions

    Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.

    From allowed-tools in the SKILL.md frontmatter.

  • Runs code

    Ships 1 file in scripts/ (Python), which the agent can run.

    Shell commands in SKILL.md call:

    • python

    From the folder's file list and the shell code blocks in SKILL.md.

  • Network

    No URLs in SKILL.md.

    From URLs in SKILL.md, links to its own repository left out.

  • Credentials

    Names no API keys, tokens, secrets or passwords.

    From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.

Context cost

Ebm Calculator loads about 1.7k tokens when it runs, and up to ~1.8k if it reads all its reference files. Until then it costs about 42 tokens; SKILL.md has 738 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~42
When it runs · the whole SKILL.md, loaded when a task matches
~1.7k
With references · SKILL.md plus every file in references/, read only if the agent opens them
~1.8k

Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.

Safety

Auto-check passed

The automated check found no risky patterns in SKILL.md.

Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); the scripts in this folder are not scanned.

SKILL.md

The full file from aipoch/medical-research-skills at commit 686e09d, republished under its MIT licence (© aipoch). 738 words, ~1,697 tokens.

Download SKILL.mdSave it as .claude/skills/ebm-calculator/SKILL.md (or your agent's skills folder). This skill also uses 4 other files; get the full folder from GitHub.
name
ebm-calculator
description
Evidence-Based Medicine diagnostic test calculator. Computes sensitivity, specificity, PPV, NPV, likelihood ratios, NNT, and pre/post-test probability.
license
MIT
author
AIPOCH

Source: https://github.com/aipoch/medical-research-skills

EBM Calculator

Evidence-Based Medicine diagnostic test calculator.

Quick Check

Use this command to verify that the packaged script entry point can be parsed before deeper execution.

bash
python -m py_compile scripts/main.py

Audit-Ready Commands

Use these concrete commands for validation. They are intentionally self-contained and avoid placeholder paths.

bash
python -m py_compile scripts/main.py
python scripts/main.py --help

When to Use

  • Use this skill when calculating diagnostic test performance (sensitivity, specificity, PPV, NPV, likelihood ratios).
  • Use this skill when converting between pre-test and post-test probability or computing NNT.
  • Use this skill when the user says "calculate sensitivity", "EBM calculator", "diagnostic accuracy", or "likelihood ratio".

Workflow

  1. Identify calculation mode: Determine mode from user request — diagnostic (sensitivity/specificity/PPV/NPV/LR), nnt (number needed to treat), or probability (pre/post-test probability conversion).
  2. Collect required parameters:
    • Diagnostic mode: TP, FN, TN, FP counts; optional prevalence for PPV/NPV adjustment
    • NNT mode: control event rate, experimental event rate
    • Probability mode: pre-test probability, likelihood ratio
  3. Validate inputs: Check that all counts are non-negative integers, rates are between 0 and 1, and denominators are not zero. If invalid, report exact error and stop.
  4. Checkpoint: Display input summary to user for confirmation before computing results.
  5. Compute results: Execute calculations per mode. Include interpretation string (e.g., "LR+ of 10 strongly rules in disease").
  6. Output: Return structured JSON with computed metrics and interpretation.
  7. Fallback: If a required parameter is missing, output a template showing which fields are needed with example values.

Features

  • Sensitivity / Specificity calculation
  • PPV / NPV with prevalence adjustment
  • Likelihood ratios (LR+ / LR-)
  • Number Needed to Treat (NNT)
  • Pre/post-test probability conversion

Parameters

ParameterTypeDefaultRequiredDescription
--mode, -mstringdiagnosticNoCalculation mode (diagnostic, nnt, probability)
--tp, --true-posint-*True positives (diagnostic mode)
--fn, --false-negint-*False negatives (diagnostic mode)
--tn, --true-negint-*True negatives (diagnostic mode)
--fp, --false-posint-*False positives (diagnostic mode)
--prevalence, -pfloat-NoDisease prevalence 0-1 (diagnostic mode)
--control-ratefloat-**Control event rate 0-1 (nnt mode)
--experimental-ratefloat-**Experimental event rate 0-1 (nnt mode)
--pretestfloat-***Pre-test probability 0-1 (probability mode)
--lrfloat-***Likelihood ratio (probability mode)
--output, -ostringstdoutNoOutput file path

* Required for diagnostic mode
** Required for nnt mode
*** Required for probability mode

Output Format

json
{
  "sensitivity": "float",
  "specificity": "float",
  "ppv": "float",
  "npv": "float",
  "lr_positive": "float",
  "lr_negative": "float",
  "interpretation": "string"
}

Risk Assessment

Risk IndicatorAssessmentLevel
Code ExecutionPython/R scripts executed locallyMedium
Network AccessNo external API callsLow
File System AccessRead input files, write output filesMedium
Instruction TamperingStandard prompt guidelinesLow
Data ExposureOutput files saved to workspaceLow

Security Checklist

  • No hardcoded credentials or API keys
  • No unauthorized file system access (../)
  • Output does not expose sensitive information
  • Prompt injection protections in place
  • Input file paths validated (no ../ traversal)
  • Output directory restricted to workspace
  • Script execution in sandboxed environment
  • Error messages sanitized (no stack traces exposed)
  • Dependencies audited
Show full SKILL.md (291 more words)Show less

Prerequisites

No additional Python packages required.

Evaluation Criteria

Success Metrics
  • Successfully executes main functionality
  • Output meets quality standards
  • Handles edge cases gracefully
  • Performance is acceptable
Test Cases
  1. Basic Functionality: Standard input → Expected output
  2. Edge Case: Invalid input → Graceful error handling
  3. Performance: Large dataset → Acceptable processing time

Lifecycle Status

  • Current Stage: Draft
  • Next Review Date: 2026-03-06
  • Known Issues: None
  • Planned Improvements:
    • Performance optimization
    • Additional feature support

Output Requirements

Every final response should make these items explicit when they are relevant:

  • Objective or requested deliverable
  • Inputs used and assumptions introduced
  • Workflow or decision path
  • Core result, recommendation, or artifact
  • Constraints, risks, caveats, or validation needs
  • Unresolved items and next-step checks

Error Handling

  • If required inputs are missing, state exactly which fields are missing and request only the minimum additional information.
  • If the task goes outside the documented scope, stop instead of guessing or silently widening the assignment.
  • If scripts/main.py fails, report the failure point, summarize what still can be completed safely, and provide a manual fallback.
  • Do not fabricate files, citations, data, search results, or execution outcomes.

Input Validation

This skill accepts requests that match the documented purpose of ebm-calculator and include enough context to complete the workflow safely.

Do not continue the workflow when the request is out of scope, missing a critical input, or would require unsupported assumptions. Instead respond:

ebm-calculator only handles its documented workflow. Please provide the missing required inputs or switch to a more suitable skill.

Response Template

Use the following fixed structure for non-trivial requests:

  1. Objective
  2. Inputs Received
  3. Assumptions
  4. Workflow
  5. Deliverable
  6. Risks and Limits
  7. Next Checks

If the request is simple, you may compress the structure, but still keep assumptions and limits explicit when they affect correctness.

© aipoch, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file

Files

SKILL.md and 4 other files (scripts, references) in scientific-skills/Other/ebm-calculator of aipoch/medical-research-skills.

  • SKILL.md
  • POLISH_CHANGELOG.md
  • eval_report_ebm-calculator_result.json
  • references/guidelines.md
  • scripts/main.py

Open the folder on GitHubat commit 686e09d

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Senior Computer Visionalirezarezvani/claude-skills28k1 repos~3.2kAutomated safety check: PassMIT
Triage Snmp Diagnosticsnetdata/netdata81k—~3kAutomated safety check: PassGPL-3.0

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Questions about Ebm Calculator

What does Ebm Calculator do?

Evidence-Based Medicine diagnostic test calculator. An agent skill from aipoch/medical-research-skills. Ebm Calculator is an agent skill from aipoch/medical-research-skills. Evidence-Based Medicine diagnostic test calculator.

How do I install Ebm Calculator in Claude Code?

Run `npx skills add aipoch/medical-research-skills --skill ebm-calculator -a claude-code`. Or copy the skill folder (scientific-skills/Other/ebm-calculator in aipoch/medical-research-skills) into .claude/skills/ebm-calculator in your project. Claude Code loads it when a task matches its description.

How do I install Ebm Calculator in Codex?

Run `npx skills add aipoch/medical-research-skills --skill ebm-calculator -a codex`. Or copy the skill folder (scientific-skills/Other/ebm-calculator in aipoch/medical-research-skills) into .agents/skills/ebm-calculator in your project. Codex loads it when a task matches its description.

Can I use Ebm Calculator in Cursor, Gemini CLI or GitHub Copilot?

Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add aipoch/medical-research-skills --skill ebm-calculator -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/ebm-calculator, .gemini/skills/ebm-calculator, .github/skills/ebm-calculator and .opencode/skills/ebm-calculator in your project.

What does Ebm Calculator need to run?

Going by SKILL.md and its folder, Ebm Calculator needs Python for the scripts in its folder and the command-line tools its instructions call (python). Our summary lists: Python 3.

Does Ebm Calculator access the network?

SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.

Is Ebm Calculator safe to install?

Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. The check reads SKILL.md only: the scripts in the folder are not scanned, so read them before running anything.

What licence does Ebm Calculator use?

Ebm Calculator is published under the MIT licence (declared in SKILL.md). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Ebm Calculator use?

About 1.7k tokens (SKILL.md is roughly 6.8k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 79 tokens, read only when the agent opens those files.

What are the alternatives to Ebm Calculator?

Skills that share tags, products or a category with Ebm Calculator: Ito Compute (affaan-m/ECC, 276k stars), Senior Computer Vision (davila7/claude-code-templates, 32k stars), Network Bgp Diagnostics (affaan-m/ECC, 276k stars) and Senior Computer Vision (alirezarezvani/claude-skills, 28k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Ebm Calculator?

aipoch (a GitHub organization) maintains it in aipoch/medical-research-skills, which has 1,978 GitHub stars. The repository holds 578 skills in this directory. The repository was last updated on September 17, 2026.

Source: aipoch/medical-research-skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.