Why This Repo?

Skills

                              ┌─────────────────────────────────┐
                              │  orchestrate: single entry point │
                              │  classifies intent, routes to    │
                              │  the right skill or chains them  │
                              └───────────────┬─────────────────┘
                                              │
                  ┌───────────────────────────┼───────────────────────────┐
                  │                           │                           │
            intake-project              (main pipeline)             grant-builder
            (new/messy projects)              │                    (proposals)
                  │                           │
                  ▼                           ▼
Literature Review -> Full-Text -> Study Design -> Analysis -> Figures -> Writing -> Reporting -> Revision -> Presenting
      |                  |              |              |           |          |            |            |           |
  search-lit    fulltext-retrieval design-study  analyze-stats make-figures write-paper check-reporting revise present-paper
                                                                |             |
                                                           self-review   manage-project
                                                                |
                                                           meta-analysis

                              ┌─────────────────────────────────────────────┐
                              │  publish-skill: package any skill above for │
                              │  open-source distribution (PII audit,       │
                              │  license check, generalization)             │
                              └─────────────────────────────────────────────┘

Available Now

Installation

Option 1: Install all skills (recommended)

git clone https://github.com/Aperivue/medsci-skills.git
cp -r medsci-skills/skills/* ~/.claude/skills/

Option 2: Install individual skills

git clone https://github.com/Aperivue/medsci-skills.git
cp -r medsci-skills/skills/check-reporting ~/.claude/skills/

After copying, restart Claude Code. Skills are automatically discovered from ~/.claude/skills/.

Tip: Not sure which skill to use? Start with /orchestrate -- it will classify your request and route you to the right tool.

Key Features

Anti-Hallucination Citations

Every reference produced by search-lit is verified against PubMed, Semantic Scholar, or CrossRef APIs. No citation is ever generated from memory alone. API errors are batched silently -- no token waste from repeated failure messages.

16 Reporting Guidelines & RoB Tools Built-in

check-reporting includes STROBE, STARD, TRIPOD+AI, PRISMA, PRISMA-DTA, ARRIVE, QUADAS-2, RoB 2, ROBINS-I, PROBAST, and NOS checklists. CONSORT, CARE, SPIRIT, and CLAIM are supported via knowledge-based assessment (checklists not bundled due to license restrictions). Now includes Results/Discussion section boundary checks.

Publication-Ready Output

analyze-stats generates reproducible Python/R code with mandatory calibration for prediction models. make-figures produces journal-specification figures (300 DPI, colorblind-safe palettes, proper dimensions) with a tool selection guide (D2 for flow diagrams, matplotlib for data plots).

Results/Discussion Boundary Enforcement

write-paper enforces strict separation: Results contain only factual findings (no interpretation, no "why"), Discussion uses interactive anchor-paper scaffolding. The critic rubric includes a dedicated Section Boundaries pass/fail gate.

Skills Work Together

Skills call each other. check-reporting invokes make-figures for PRISMA diagrams. write-paper calls search-lit for citation verification. self-review delegates reporting compliance to check-reporting.

Requirements

• Claude Code CLI or IDE extension
• Python 3.9+ (for statistical analysis and figure generation)
• R 4.0+ with meta (>=7.0), metafor (>=4.0), mada (>=0.5.11) packages (for meta-analysis)

Use Cases

"I have a diagnostic accuracy study draft and need to check compliance."

/design-study          # Review study design for leakage and bias
/analyze-stats         # Generate DTA statistics (sensitivity, specificity, AUC with CIs)
/make-figures          # Create ROC curve + STARD flow diagram
/check-reporting       # Audit against STARD checklist

"I'm starting a meta-analysis and need to find relevant studies."

/search-lit            # Systematic search across PubMed + Semantic Scholar
/fulltext-retrieval    # Batch download open-access PDFs for included studies
/meta-analysis         # Full DTA or intervention MA pipeline
/make-figures          # Forest plot + PRISMA flow diagram
/check-reporting       # Audit against PRISMA-DTA checklist

"I need to present a paper at journal club."

/present-paper         # Analyze paper, find supporting refs, draft speaker script

"I want to write a grant proposal for a radiology AI project."

/design-study          # Validate study design before writing
/grant-builder         # Structure significance, innovation, approach
/search-lit            # Find supporting literature with verified citations

Disclaimer

These skills are research productivity tools. They do not provide clinical decision support, medical advice, or diagnostic recommendations. All outputs should be reviewed by qualified researchers before use in any publication or clinical context.

License

MIT License. See LICENSE for details.

Bundled reporting guideline checklists retain their original Creative Commons licenses. See each checklist file for attribution.

About

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