LLM-assisted biomedical literature screening and extraction for PubMed, GEO, and preprints.
Connect Runs on your machine
claude mcp add biolit -e ANTHROPIC_API_KEY=<ANTHROPIC_API_KEY> -e OPENAI_API_KEY=<OPENAI_API_KEY> -e LLM_PROVIDER=<LLM_PROVIDER> -e LLM_MODEL=<LLM_MODEL> -e SEMANTIC_SCHOLAR_API_KEY=<SEMANTIC_SCHOLAR_API_KEY> -e UNPAYWALL_EMAIL=<UNPAYWALL_EMAIL> -- uvx biolit==0.1.25{
"mcpServers": {
"biolit": {
"command": "uvx",
"args": [
"biolit==0.1.25"
],
"env": {
"ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
"OPENAI_API_KEY": "<OPENAI_API_KEY>",
"LLM_PROVIDER": "<LLM_PROVIDER>",
"LLM_MODEL": "<LLM_MODEL>",
"SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
"UNPAYWALL_EMAIL": "<UNPAYWALL_EMAIL>"
}
}
}
}{
"mcpServers": {
"biolit": {
"command": "uvx",
"args": [
"biolit==0.1.25"
],
"env": {
"ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
"OPENAI_API_KEY": "<OPENAI_API_KEY>",
"LLM_PROVIDER": "<LLM_PROVIDER>",
"LLM_MODEL": "<LLM_MODEL>",
"SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
"UNPAYWALL_EMAIL": "<UNPAYWALL_EMAIL>"
}
}
}
}{
"servers": {
"biolit": {
"type": "stdio",
"command": "uvx",
"args": [
"biolit==0.1.25"
],
"env": {
"ANTHROPIC_API_KEY": "<ANTHROPIC_API_KEY>",
"OPENAI_API_KEY": "<OPENAI_API_KEY>",
"LLM_PROVIDER": "<LLM_PROVIDER>",
"LLM_MODEL": "<LLM_MODEL>",
"SEMANTIC_SCHOLAR_API_KEY": "<SEMANTIC_SCHOLAR_API_KEY>",
"UNPAYWALL_EMAIL": "<UNPAYWALL_EMAIL>"
}
}
}
}Replace the values in angle brackets with your own. Keys stay on your machine; we never see them.
Tools
This server runs locally, so its tools are listed by your MCP client once it starts.
Environment variables
| Name | Description |
|---|---|
ANTHROPIC_API_KEYOptional, secret | Anthropic API key (required when using the default Anthropic provider) |
OPENAI_API_KEYOptional, secret | OpenAI API key (required when using LLM_PROVIDER=openai) |
LLM_PROVIDEROptional | LLM provider: anthropic (default), openai, or ollama |
LLM_MODELOptional | Model name override (e.g. claude-sonnet-4-6, gpt-4o) |
SEMANTIC_SCHOLAR_API_KEYOptional, secret | Semantic Scholar API key for higher rate limits on citation lookup (optional) |
UNPAYWALL_EMAILOptional | Email address for Unpaywall API access to improve PDF retrieval (optional) |
Details
| Package | [email protected] (PYPI, stdio) |
| First published | 1 Apr 2026 |
| Last updated | 1 Apr 2026 |
| Registry name | io.github.rachadele/biolit |
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