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Implements low-level utilities for single-cell trajectory analysis, primarily intended for re-use inside higher-level packages. Include a function to create a cluster-level minimum spanning tree and data structures to hold pseudotime infere
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'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. 'ggtree' is designed for visualization and annotation of phylogenetic trees and other tree-like structures with their annotation data.
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Query and answer questions about Volcengine API specifications. Trigger this skill whenever a user asks about Volcengine API parameters, error codes, request methods, enum values, required fields, response structures, pagination, parameter dependencies, or API comparisons — even if they don't explicitly say "API". Typical triggers include questions like "What parameters does DescribeInstances have?", "What values does Status support?", "What does InvalidInstanceId.NotFound mean?", "Does Volcengine have a batch tag deletion API?", "Which APIs does ECS support?", "How do I pass parameters to CreateDatabase?", "Is ChargeType required?", "What fields does DescribeInstances return?", "How do I paginate instance lists?", "What's the difference between these two APIs?", "RunInstances returns InvalidParameterValue". When the user needs runnable SDK code, hand off to the volcengine-sdk-generator skill. When the user needs CLI-based operations, hand off to the volcengine-cli skill. Supports both Chinese and English prompts.
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Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks, or visualizing network topologies. Applicable to social networks, biological networks, transportation systems, citation networks, and any domain involving pairwise relationships.
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Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.
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Add or revise source-level JSDoc for Shift APIs. Use this skill before writing or editing documentation comments for exported classes, methods, constructors, domain data structures, render frames, reactive state, or any API where caller intent, side effects, lifetime, ownership, or nullability are easy to misunderstand.
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Use CausalNex to learn causal structures, fit Bayesian networks, discretize features, generate synthetic graph data, and run inference, evaluation, and latent-variable workflows.
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Route Biopython computational biology workflows across sequence objects, file formats, alignments, structures, web databases, BioSQL, motifs, restriction enzymes, and specialized modules.
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Use when you need to display hierarchical data structures.
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Generate implementation code and tests from written specifications. Use when the user provides specifications (natural language descriptions, formal specs, requirements documents, API specs) and asks Claude to implement the described functionality. Supports data structures, algorithms, classes, functions, and includes automatic test generation to validate implementation against specification.
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Generate systematic refinement steps from high-level specifications to concrete implementations in Isabelle/HOL or Coq, preserving correctness obligations at each step. Use when working with formal verification, program refinement, proof development, or when translating abstract specifications into executable code while maintaining formal guarantees. Supports data refinement (abstract types → concrete structures), algorithmic refinement (specifications → algorithms), and stepwise refinement with proof obligations.
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Translate Python programs to equivalent Lean4 code while preserving semantics and ensuring type safety. Use when users ask to convert, translate, or port Python code to Lean4, or when they need to verify Python algorithms using Lean4's theorem proving capabilities. Handles functions, classes, data structures, control flow, and ensures the generated Lean4 code is well-typed, executable, and can successfully run.
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Converts pseudocode descriptions and algorithm specifications into complete, executable Java code. Use this skill when you need to implement algorithms from pseudocode, translate algorithm descriptions to Java, generate Java code from specifications, convert textbook algorithms to working code, or create executable implementations from high-level descriptions. Preserves logic and control flow while handling Java idioms, data structures, and includes test cases for verification.
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Generate complete, production-ready functions and classes from formal specifications, design descriptions, type signatures, or natural language requirements. Use this skill when implementing APIs from specifications, creating data structures from schemas, building classes from UML diagrams, generating code from contracts, or translating design documents into code. Supports multiple programming languages and follows language-specific best practices.
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Access UniProt for protein sequence and annotation retrieval. Use this skill when: (1) Looking up protein sequences by accession, (2) Finding functional annotations, (3) Getting domain boundaries, (4) Finding homologs and variants, (5) Cross-referencing to PDB structures. For structure retrieval, use pdb. For sequence design, use proteinmpnn.
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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.
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Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.
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Category-theoretic graph rewriting with DPO, SPO, and SqPO pushouts for C-Sets. Declarative transformation of acset data structures.
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Structures Regulation AB II compliance with asset-level data requirements, servicer reporting, and shelf registration eligibility. Use when ensuring Reg AB compliance, preparing ABS reporting, or structuring shelf eligibility.
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Creates JSON Schema validation files for skills, agents, hooks, workflows, and data structures. Ensures type safety and input validation across the framework.
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Expert in designing, orchestrating, and managing multi-agent systems (MAS). Specializes in agent collaboration patterns, hierarchical structures, and swarm intelligence. Use when building agent teams, designing agent communication, or orchestrating autonomous workflows.
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Use when writing or reviewing error handling, floating-point math, concurrent code, remote calls, singletons/globals, hot-path data structures, or high-volume log statements
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Query and answer questions about Volcengine API specifications. Use when the user asks about API parameters, error codes, request methods, enum values, required fields, response structures, pagination, parameter dependencies, service capability lists, API availability, or API comparisons, even if they do not explicitly say "API". Typical intent includes checking what an action supports, which fields are required, what values a parameter accepts, why an API returns a specific error, how to pass nested or body parameters, how pagination works, what an API response contains, whether a batch operation exists, what services or versions expose an operation, or how two APIs differ. Use API Explorer data as the authoritative source and preserve constraints, examples, and caveats found in the spec. Answer in Chinese or English. When the user needs runnable SDK code, language-specific examples, or SDK configuration, hand off to volcengine-sdk-generator. When they need CLI operations, hand off to volcengine-cli.
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Use when building C# applications with .NET 8+, ASP.NET Core APIs, or Blazor web apps. Builds REST APIs using minimal or controller-based routing, configures database access with Entity Framework Core, implements async patterns and cancellation, structures applications with CQRS via MediatR, and scaffolds Blazor components with state management. Invoke for C#, .NET, ASP.NET Core, Blazor, Entity Framework, EF Core, Minimal API, MAUI, SignalR.
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