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Bioinformatics

Genomics and biological data.

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bioinformatics
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ducklake-walk

Ergodic random walks over DuckLake lakehouses with GF(3) triadic concurrent walkers. Society-of-mind coordination for schema exploration.

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bioinformatics
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three-match

3-MATCH gadgets and non-backtracking geodesics for 3-SAT via colored subgraph isomorphism.

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bioinformatics
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mbius-path-filtering

Non-orientable topological filtering that eliminates self-revisiting paths

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bioinformatics
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three-match

3-MATCH colored subgraph isomorphism gadget for 3-SAT reduction

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bioinformatics
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quic-channel-grading

QUIC channel quality grading with BBRv3 congestion control analysis. Classifies network paths into GF(3) tiers based on RTT, bandwidth, loss, and pacing efficiency. Integrates with Iroh P2P and world-letter cross-predictions.

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bioinformatics
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chromatic-walk

3 parallel agents explore codebase improvements via GF(3) balanced prime geodesics

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bioinformatics
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sheaf-cohomology

Čech cohomology for local-to-global consistency verification in code

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bioinformatics
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bidirectional-lens-logic

Hedges' 4-kind lattice for bidirectional programming - covariant/contravariant/invariant/bivariant types with GF(3) correspondence

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bioinformatics
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compositional-acset-comparison

Compare data structures (DuckDB, LanceDB) via ACSets with persistent homology coverage analysis and geometric morphism translation.

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bioinformatics
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polynomial-dynamics

Dynamic structures via polynomial functor arrangements from Topos Institute

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bioinformatics
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julia-gay

Gay.jl integration for deterministic color generation. SplitMix64 RNG, GF(3) trits, and SPI-compliant fingerprints in Julia.

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bioinformatics
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center-manifold

Invariant manifold tangent to center eigenspace

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bioinformatics
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ramanujan-expander

Ramanujan graphs and Alon-Boppana spectral optimality for edge growth

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bioinformatics
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epistemic-arbitrage

Propagator-based parallel structure for exploiting knowledge differentials

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bioinformatics
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waddington-landscape

Waddington's epigenetic landscape: cell fate as gradient flow on potential surfaces, connecting developmental biology to dynamical systems, Schrödinger bridges, and fractional diffusion

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bioinformatics
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gflownet

Bengio's GFlowNets: Generative Flow Networks that sample proportionally to reward. Diversity over maximization for causal discovery and molecule design.

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bioinformatics
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triad-interleave

Interleave three deterministic color streams into balanced schedules

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bioinformatics
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unwiring-arena

Play/Coplay arena theory for autopoietic closure with GF(3) conservation

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bioinformatics
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structural-rewilding

Homotopical approach to Artificial Life where 'life' is the topology of changes (diffs). Three orthogonal directions: Behavioral (→), Structural (↓), Bridge (↘) with Narya interaction-time verification.

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bioinformatics
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unified-reafference

Cross-agent session database with B3 Poset and Bumpus sheaves

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