/plugin:bio - Bio Research Plugin Commands

Biological and life sciences research workflows powered by Anthropic's bio-research plugin.

Usage

/plugin:bio <command> [options] [arguments]
/plugin:bio --help                  # Show this help
/plugin:bio <command> --help        # Command-specific help

Commands

Command	Description	Alias
literature	Search and analyze scientific literature	/bio:lit

Command Details

literature

/plugin:bio literature "<research query>"
/plugin:bio literature --help

Options:
  --query           Research query or topic
  --databases       Sources: pubmed, biorxiv, medrxiv, pmc
  --date-range      Publication date range
  --type            Article type: research, review, meta-analysis, clinical-trial
  --organism        Target organism filter
  --limit           Maximum results (default: 50)
  --summarize       Generate literature summary
  --citations       Include citation analysis

Example:

/plugin:bio literature "CRISPR delivery mechanisms in vivo" --databases pubmed,biorxiv --summarize

Advanced Example:

/plugin:bio literature "mRNA vaccine stability" \
  --databases pubmed,medrxiv \
  --date-range 2023-2026 \
  --type review,research \
  --summarize \
  --citations

Search Filters

Filter	Values	Description
--organism	human, mouse, rat, zebrafish, drosophila	Species filter
--journal	nature, cell, science, nejm	Journal filter
--impact	high, medium, all	Journal impact factor
--access	open, all	Open access filter

Output Formats

# Default: Markdown summary
/plugin:bio literature "query"

# Citation format (BibTeX)
/plugin:bio literature "query" --format bibtex

# Structured JSON
/plugin:bio literature "query" --format json

# Research notes
/plugin:bio literature "query" --format notes

Connectors (Optional)

Connector	Enhancement
PubMed	NIH literature database
bioRxiv	Preprint server
Semantic Scholar	Citation analysis
Zotero	Reference management
Benchling	Lab notebook integration

CODITECT Enhancements

• Memory Integration: /cxq retrieves past research queries and papers
• Track Alignment: Maps to Track O (Vision & Strategy) for research planning
• Multi-LLM: Routes to Opus for complex literature synthesis

Research Workflow Integration

Literature Search → Paper Analysis → Synthesis → Research Notes
        ↓                 ↓              ↓
   /bio:lit          Read papers    Summarize
        ↓                 ↓              ↓
   Results           Annotate       /cx capture

Important Notes

⚠️ Research Verification: AI-generated literature summaries should be verified against primary sources. Always check original papers for accuracy.

⚠️ Citation Accuracy: Verify all citations and references before including in publications.

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Track: H (Framework Autonomy) Task ID: H.21.18