Search: "retrieval"

Provides a Python interface to bioinformatics services including UniProt, KEGG, ChEMBL, Reactome, QuickGO, and UniChem. Used for cross-database protein annotation, pathway retrieval, chemical identifier mapping, and integrated biological data workflows with BioServices.

Compiles current scholarly evidence for a scientific manuscript or research brief when the user explicitly asks to gather literature, references, background evidence, competing findings, or a manuscript research packet. Uses Parallel Search by default, Parallel Extract for source retrieval, Parallel Research for explicitly deep/exhaustive work, optional explicit Parallel Chat, and optional Perplexity only when requested or allowed as a failure fallback.

Searches and reads biomedical papers, FDA/PMDA/EMA documents, clinical trials, and protein records with the GXL Paperclip CLI and Python SDK. Supports source-scoped search, full-text grep, metadata SQL, map/reduce extraction, figure analysis, optional repositories and claim verification, and line-pinned citations. Use when a task names GXL paperclip, asks to install or authenticate it, or requests literature retrieval and evidence extraction through Paperclip.

Automate Remote Retrieval tasks via Rube MCP (Composio). Always search tools first for current schemas.

Caura (formerly MemClaw) — governed shared memory for AI agent fleets. Multi-agent, multi-tenant, MCP-native. Trust tiers, keystone policies, audit trails, knowledge graph, self-improving retrieval. Apache 2.0.

Git for Knowledge Graphs: versioned agent memory with hybrid GraphRAG retrieval. Runs entirely offline, no LLM required.