cat-tripartite
'Category Theory Tripartite: SICP generic dispatch, CTP Racket categories,
catalyst-chemical
Chemical reaction network modeling with Catalyst.jl. Autopoietic systems,
categorical-composition
**Category:** Phase 3 Core - Compositional Architecture
catlab-asi-interleave
Bridge layer connecting AlgebraicJulia/Catlab.jl to plurigrid/asi. Wires ACSets (attributed C-sets), wiring diagrams, decorated cospans, and the AlgebraicJulia ecosystem (AlgebraicDynamics, AlgebraicPetri, AlgebraicRewriting, Decapodes) into the ASI skill graph. ACSets generalize relational databases with categorical semantics; every diagram, network, and model in the ecosystem is an ACSet.
catp
Category-theoretic pipes with GF(3) flow balance checking. Validates
cellxgene-census
Query CZ CELLxGENE Census (61M+ cells). Filter by cell type/tissue/disease, retrieve expression data, integrate with scanpy/PyTorch, for population-scale single-cell analysis.
cgx-acquisition-re
Reverse engineer CGX Cognionics Quick-20 EEG acquisition protocol using MCP RE tooling (Binary Ninja, Ghidra, radare2)
chembl-database
Query ChEMBL's bioactive molecules and drug discovery data. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki), find inhibitors, perform SAR studies, for medicinal chemistry.
chemical-abstract-machine
Berry & Boudol''s CHAM: computation as chemical reactions on multisets.
chemical-organization-theory
**Category:** Phase 3 Core - Autopoietic Systems
cirq
Quantum computing framework for building, simulating, optimizing, and executing quantum circuits. Use this skill when working with quantum algorithms, quantum circuit design, quantum simulation (noiseless or noisy), running on quantum hardware (Google, IonQ, AQT, Pasqal), circuit optimization and compilation, noise modeling and characterization, or quantum experiments and benchmarking (VQE, QAOA, QPE, randomized benchmarking).
citation-management
Comprehensive citation management for academic research. Search Google Scholar and PubMed for papers, extract accurate metadata, validate citations, and generate properly formatted BibTeX entries. This skill should be used when you need to find papers, verify citation information, convert DOIs to BibTeX, or ensure reference accuracy in scientific writing.
claude-in-chrome-troubleshooting
Diagnose and fix Claude in Chrome MCP extension connectivity issues. Use when mcp__claude-in-chrome__* tools fail, return "Browser extension is not connected", or behave erratically.
claude-opus-4-5-migration
Migrate prompts and code from Claude Sonnet 4.0, Sonnet 4.5, or Opus 4.1 to Opus 4.5. Use when the user wants to update their codebase, prompts, or API calls to use Opus 4.5. Handles model string updates and prompt adjustments for known Opus 4.5 behavioral differences. Does NOT migrate Haiku 4.5.
claude-questions-leaderboard
Track Claude's best and worst questions in DuckDB. Use when Claude asks a notably good or bad question, or to review question quality. Triggers: leaderboard, bad question, good question, question quality.
clifford-acset-bridge
Bridge between Clifford Algebras (ganja.js/Grassmann.jl) and ACSets with grade-preserving morphisms
clinical-decision-support
Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with decision algorithms). Supports GRADE evidence grading, statistical analysis (hazard ratios, survival curves, waterfall plots), biomarker integration, and regulatory compliance. Outputs publication-ready LaTeX/PDF format optimized for drug development, clinical research, and evidence synthesis.
clinical-reports
Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools.
clinicaltrials-database
Query ClinicalTrials.gov via API v2. Search trials by condition, drug, location, status, or phase. Retrieve trial details by NCT ID, export data, for clinical research and patient matching.
clinpgx-database
Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.
clinvar-database
Query NCBI ClinVar for variant clinical significance. Search by gene/position, interpret pathogenicity classifications, access via E-utilities API or FTP, annotate VCFs, for genomic medicine.
cloudflare-deploy
Deploy applications and infrastructure to Cloudflare using Workers, Pages, and related platform services. Use when the user asks to deploy, host, publish, or set up a project on Cloudflare.
cloudflare
Comprehensive Cloudflare platform skill covering Workers, Pages, storage (KV, D1, R2), AI (Workers AI, Vectorize, Agents SDK), networking (Tunnel, Spectrum), security (WAF, DDoS), and infrastructure-as-code (Terraform, Pulumi). Use for any Cloudflare development task.
cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
codereview-roasted
Brutally honest code review in the style of Linus Torvalds, focusing on data structures, simplicity, and pragmatism. Use when you want critical, no-nonsense feedback that prioritizes engineering fundamentals over style preferences.
colored-vertex-model
Colored stochastic six-vertex model with rainbow initial data, projection properties, and height functions tracking particle counts by color.
Command Development
This skill should be used when the user asks to "create a slash command", "add a command", "write a custom command", "define command arguments", "use command frontmatter", "organize commands", "create command with file references", "interactive command", "use AskUserQuestion in command", or needs guidance on slash command structure, YAML frontmatter fields, dynamic arguments, bash execution in commands, user interaction patterns, or command development best practices for Claude Code.
commit-security-scan
Analyze code changes for security vulnerabilities using LLM reasoning and threat model patterns. Use for PR reviews, pre-commit checks, or branch comparisons.
comonad-context
Comonads: dual to Monad. Extract + Extend.
condensed-mathematics
Scholze-Clausen condensed math - condensed sets, liquid vector spaces, solid modules, 6-functor formalism, Kunneth exactness
confighub-usage-guide
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conformal-ga
Conformal Geometric Algebra (CGA) for circles, spheres, and Möbius transformations
continuous-inverter
Real-time monitoring and automated remediation for proof system health.
coolify-deployment
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copywriting
When the user wants to write, rewrite, or improve marketing copy for any page — including homepage, landing pages, pricing pages, feature pages, about pages, or product pages. Also use when the user says "write copy for," "improve this copy," "rewrite this page," "marketing copy," "headline help," or "CTA copy." For email copy, see email-sequence. For popup copy, see popup-cro.
cosmic-database
Access COSMIC cancer mutation database. Query somatic mutations, Cancer Gene Census, mutational signatures, gene fusions, for cancer research and precision oncology. Requires authentication.
counter-surveillance
Assess and harden operational security (OPSEC) posture for applications, communications, and infrastructure. Identifies surveillance exposure, metadata leakage, and tracking vectors. Use when auditing privacy-sensitive applications, reviewing OPSEC for threat models involving state-level adversaries, or hardening communications infrastructure.
cq-ai-deterministic-security-scanning-with-ternary-polarity
Deterministic code security scanner using SplitMix64 seeding. Same seed + same codebase = identical findings. Ternary severity classification. Triggers: cq-ai, security scan, deterministic analysis, code query, vulnerability scanner.
crypto-fiat-bridge
Automated APT-to-fiat payment pipeline via PYUSD stablecoin bridge. Load when converting APT holdings to OpenRouter API credits, bridging Aptos tokens to Ethereum, or executing crypto-to-fiat payments.
cryptographic-audit
Audit cryptographic implementations for misuse, weak algorithms, improper key management, and TLS/certificate configuration issues. Uses testssl.sh, openssl, sslyze, and code review patterns. For authorized security assessments.
fluidsim
Framework for computational fluid dynamics simulations using Python. Use when running fluid dynamics simulations including Navier-Stokes equations (2D/3D), shallow water equations, stratified flows, or when analyzing turbulence, vortex dynamics, or geophysical flows. Provides pseudospectral methods with FFT, HPC support, and comprehensive output analysis.
formal-verification-ai
**Category:** Phase 3 Core - Correctness Guarantees
free-forgetful
Free-Forgetful adjunctions. F ⊣ U.
full-stack-playbook
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g
World G Skill
ga-codegen
Geometric Algebra code generation for C++, C#, Rust, Python from ganja.js templates
ga-visualization
Geometric Algebra visualization via ganja.js graph() - SVG/WebGL rendering of multivectors
galois-connections
Galois connections for lawful conversions and bi-Heyting topos logic. Lift adjoint pairs as behaviors with floor/ceiling/round/truncate. Derives ∧∨⇒¬∼ from adjoints.
ganja-wedge-game
Geometric Algebra game mechanics via ganja.js with implicit player skills for wedge/vee/dot operations
geb
'Anoma''s Geb: Categorical semantics via S-expressions, polynomial functors
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