Auto-generate and maintain CLAUDE.md files with project-aware context, query NIH-funded research projects and publications, extract metadata from scientific repositories, and manage Synapse biomedical data platform operations via CLI or Python SDK.
Brief description of what this skill enables Claude to do and what tool/service it covers.
Create initial CLAUDE.md files for a repo with none — auto-detects stack, pulls context from GitHub/Jira/Confluence, produces concise files focused on non-obvious patterns.
Update existing CLAUDE.md files by analyzing code changes, GitHub PRs/issues, Jira/Confluence since last modification, with full accuracy audit.
Query the NIH RePORTER API (api.reporter.nih.gov) for federally-funded research projects and publications. Covers POST /v2/projects/search and POST /v2/publications/search — criteria payload construction, pagination, rate-limit handling, and the criteria→response field-name mapping that trips up most callers.
Patterns for extracting and normalizing metadata from scientific data repositories (GEO, SRA/ENA, PRIDE, BioStudies, PubMed) and publication sources. Covers per-sample identifier derivation, author name normalization, assay type determination, species verification, file format normalization, and a 4-tier gap-fill strategy for resolving missing annotation fields.
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A collection of agent skills for Sage Bionetworks — data science, bioinformatics, and research tooling for use with Claude Code.
/plugin marketplace add Sage-Bionetworks/agent-skills
/plugin install agent-skills
| Skill | Description | Category |
|---|---|---|
| synapse-python-client | Interact with Synapse (synapse.org) for biomedical data sharing using the modern Python client | Bioinformatics |
| nih-reporter | Query the NIH RePORTER API (projects + publications) — payload construction, pagination, rate-limit handling, and the criteria↔include↔response field-name mapping | Research |
| synapse-data-curation | Advanced Synapse REST API patterns for data curation: annotations2 etag handling, Dataset entity creation with dynamic columns, JSON Schema binding, and wiki management | Bioinformatics |
| scientific-metadata-extraction | Extract and normalize scientific dataset metadata from GEO, SRA/ENA, PubMed, and BioSample: per-sample ID derivation, author normalization, assay type determination, and a 4-tier gap-fill strategy | Bioinformatics |
| bootstrap-claudemd | Generate a new CLAUDE.md from scratch by exploring a codebase | Developer Tools |
| evolve-claudemd | Update existing CLAUDE.md files by analyzing code changes and auditing accuracy | Developer Tools |
Want to add a skill? See CONTRIBUTING.md.
npx claudepluginhub sage-bionetworks/agent-skills --plugin agent-skillsComprehensive skill pack with 66 specialized skills for full-stack developers: 12 language experts (Python, TypeScript, Go, Rust, C++, Swift, Kotlin, C#, PHP, Java, SQL, JavaScript), 10 backend frameworks, 6 frontend/mobile, plus infrastructure, DevOps, security, and testing. Features progressive disclosure architecture for 50% faster loading.
A growing collection of Claude-compatible academic workflow bundles. Covers scientific figures, manuscript writing and polishing, reviewer assessment, citation retrieval, data availability, paper reading, literature search, response letters, paper-to-PPTX conversion, and evidence-grounded Chinese invention patent drafting. Rules are organized as reusable skill folders with explicit workflows and quality checks.
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This skill should be used when users need to generate ideas, explore creative solutions, or systematically brainstorm approaches to problems. Use when users request help with ideation, content planning, product features, marketing campaigns, strategic planning, creative writing, or any task requiring structured idea generation. The skill provides 30+ research-validated prompt patterns across 14 categories with exact templates, success metrics, and domain-specific applications.
Develop, test, build, and deploy Godot 4.x games with Claude Code. Includes GdUnit4 testing, web/desktop exports, CI/CD pipelines, and deployment to Vercel/GitHub Pages/itch.io.