Skills Data Science Embedding Hierarchical Data in Hyperbolic Space

Embedding Hierarchical Data in Hyperbolic Space

v20260707
vector-hyperbolic
This skill enables the embedding of hierarchical datasets, such as dependency trees, ontologies, and module structures, into the Poincare ball model. Hyperbolic space is uniquely suited for capturing deep, non-linear relationships, allowing the preserved geodesic distance to accurately reflect structural depth and similarity within a hierarchy. Ideal for analyzing code architecture, complex knowledge graphs, and taxonomy.
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Overview

Vector Hyperbolic

Embed hierarchical data in the Poincare ball model using ruvector.

When to use

Use this skill when your data has inherent hierarchy — dependency trees, module structures, taxonomies, org charts, ontologies. Hyperbolic space captures hierarchical distances with far fewer dimensions than Euclidean embeddings.

Steps

  1. Ensure ruvector@0.2.25 is available:
    npm ls ruvector 2>/dev/null | grep '0.2.25' || npm install ruvector@0.2.25
    
  2. Generate a base ONNX embedding (ruvector@0.2.25 does not expose a --model poincare flag on embed text):
    npx -y ruvector@0.2.25 embed text "hierarchical concept" -o concept.vec.json
    
  3. Project into the Poincare ball in your own code (or via the experimental neural substrate):
    npx -y ruvector@0.2.25 embed neural --help
    
    For an ad-hoc projection, normalize the 384-dim vector to live inside the unit ball (x_i / (||x|| * (1 + epsilon))) and persist the projected coordinates alongside the original embedding.
  4. Geodesic distance: d(u, v) = arcosh(1 + 2 * ||u-v||^2 / ((1-||u||^2)(1-||v||^2))) Distance grows logarithmically with tree depth, preserving hierarchy.
  5. Store results: mcp__claude-flow__memory_store({ key: "hyperbolic-CONCEPT", value: "COORDINATES_AND_NEIGHBORS", namespace: "hyperbolic-embeddings" })

Caveats

  • ruvector@0.2.25 has no first-class Poincare ball CLI flag. Treat hyperbolic projection as a post-processing step over a standard ONNX embedding.
  • If you need a hyperbolic search index, store projected coordinates in AgentDB and compute geodesic distance in your own retrieval code.

Poincare ball properties

Property Meaning
Norm close to 0 Generic, root-level concept
Norm close to 1 Specific, leaf-level concept
Small geodesic distance Closely related in hierarchy
Large geodesic distance Distant or different subtrees

Use cases

  • Dependency analysis: embed module imports to find tightly coupled subtrees
  • Code architecture: map class hierarchies to discover structural patterns
  • Knowledge organization: embed concepts to reveal taxonomic relationships
  • Codebase navigation: find most specific/general modules relative to a query
Info
Category Data Science
Name vector-hyperbolic
Version v20260707
Size 2.57KB
Updated At 2026-07-13
Language