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true-alife
TrueALIFE: Self-Indexing Automata at the Edge of Chaos
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databases bioinformatics AI Skills
Discover databases bioinformatics skills, compare source repositories and read the instructions for each workflow.
Categories: databases bioinformatics
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compositional-acset-comparison
Compositional algorithm and data analysis via algebraic databases
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GitHub
color-envelope-preserving
GF(3) color envelope preservation across navigator compositions
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GitHub
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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GitHub
acsets-algebraic-databases
ACSets (Attributed C-Sets): Algebraic databases with Specter-style bidirectional
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GitHub
unified-reafference
Cross-agent session database with B3 Poset and Bumpus sheaves
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GitHub
ihara-zeta
Ihara zeta function for graphs: non-backtracking walks, prime cycles, and spectral analysis via det(I - uB).
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GitHub
unworld
Replace time with color chain derivations via seed chaining
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GitHub
discopy
DisCoPy: Python library for computing with string diagrams - monoidal
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GitHub
assembly-index
Lee Cronin's Assembly Theory for molecular complexity measurement and
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GitHub
compositional-acset-comparison
Compare data structures (DuckDB, LanceDB) via ACSets with persistent homology coverage analysis and geometric morphism translation.
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GitHub
triad-interleave
Interleave three deterministic color streams into balanced schedules
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GitHub
three-match
3-MATCH gadgets and non-backtracking geodesics for 3-SAT via colored subgraph isomorphism.
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GitHub
bidirectional-lens-logic
Hedges' 4-kind lattice for bidirectional programming - covariant/contravariant/invariant/bivariant types with GF(3) correspondence
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GitHub
unworld
Replace temporal succession with derivational chains using deterministic seeds and GF(3) invariants.
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GitHub
condensed-analytic-stacks
Scholze-Clausen condensed mathematics bridge to sheaf neural networks via 6-functor formalism
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GitHub
investigate
Deep analytical investigation mode using Bayesian reasoning, superforecasting techniques, and rigorous hypothesis testing. Combines methods from Kahneman, Tetlock, Peirce, and Feynman. Use when user invokes /in...
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GitHub
policyengine-uk-data
UK survey data enhancement - FRS with WAS imputation patterns
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GitHub
reactree-agent-coordination-patterns
"Hierarchical task decomposition with control flow nodes and dual memory systems from ReAcTree research. Trigger keywords: ReAcTree, parallel execution, working memory, episodic memory, LOOP, CONDITIONAL, FEEDB...
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GitHub
pipeline-tracker
Global drug development pipeline tracking by disease, target, mechanism, or company. Use for competitive intelligence, opportunity identification, and trend analysis. Keywords: pipeline, drug development, clin...
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GitHub
target-profile
Generate comprehensive target profiles including druggability assessment, disease associations, pathway context, and competitive landscape. Use this skill when analyzing drug targets for validation, dossier cr...
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GitHub
report-generator
Generate professional drug discovery reports including target dossiers, competitive briefs, and Go/No-Go decision summaries. Use this skill when you need formatted reports for presentations, decision meetings,...
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GitHub
lifesciences-graph-builder
Orchestrates life sciences APIs to build knowledge graphs using the Fuzzy-to-Fact protocol, combining MCPs for nodes and curl for edges, then persisting to Graphiti. This skill should be used when the user asks...
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GitHub
lifesciences-proteomics
Queries protein databases (UniProt, STRING, BioGRID) via curl for protein lookups, protein-protein interactions, functional enrichment analysis, and cross-database ID mapping. This skill should be used when the...
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