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Agent skills
claude-skills

Topic: claude-skills

11,948 skills in this topic.

biopython 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.
Microck/ordinary-claude-skills 152
dnanexus-integration DNAnexus cloud genomics platform. Build apps/applets, manage data (upload/download), dxpy Python SDK, run workflows, FASTQ/BAM/VCF, for genomics pipeline development and execution.
Microck/ordinary-claude-skills 152
diffdock Diffusion-based molecular docking. Predict protein-ligand binding poses from PDB/SMILES, confidence scores, virtual screening, for structure-based drug design. Not for affinity prediction.
Microck/ordinary-claude-skills 152
denario Multiagent AI system for scientific research assistance that automates research workflows from data analysis to publication. This skill should be used when generating research ideas from datasets, developing research methodologies, executing computational experiments, performing literature searches, or generating publication-ready papers in LaTeX format. Supports end-to-end research pipelines with customizable agent orchestration.
Microck/ordinary-claude-skills 152
research Research libraries, APIs, and patterns using searchGitHub and Exa tools. Finds real-world implementations and saves structured reports to docs/research/. Use when investigating technologies, debugging issues, or comparing options.
Microck/ordinary-claude-skills 152
datamol Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery: SMILES parsing, standardization, descriptors, fingerprints, clustering, 3D conformers, parallel processing. Returns native rdkit.Chem.Mol objects. For advanced control or custom parameters, use rdkit directly.
Microck/ordinary-claude-skills 152
research Research libraries, APIs, and patterns using searchGitHub and Exa tools. Finds real-world implementations and saves structured reports to docs/research/. Use when investigating technologies, debugging issues, or comparing options.
Microck/ordinary-claude-skills 152
ReasoningBank Intelligence Implement adaptive learning with ReasoningBank for pattern recognition, strategy optimization, and continuous improvement. Use when building self-learning agents, optimizing workflows, or implementing meta-cognitive systems.
Microck/ordinary-claude-skills 152
positron-issue-creator This skill should be used when drafting GitHub issues for the Positron repository. It provides workflows for searching duplicates, selecting appropriate labels, gathering complete context through questioning, and writing terse, fluff-free issues that precisely describe what is needed or wrong. The skill prepares issues for manual submission by the user. Use this skill when the user asks to draft or prepare an issue for Positron.
Microck/ordinary-claude-skills 152
positron-intake-rotation This skill should be used when handling issue intake rotation duties for the Positron repository. It provides workflows for reviewing and organizing new issues, responding to discussions, handling support tickets, and searching for related content. Use this skill when on intake rotation duty, when helping someone with intake tasks, or when learning the intake rotation process.
Microck/ordinary-claude-skills 152
biomni Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.
Microck/ordinary-claude-skills 152
benchling-integration Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
Microck/ordinary-claude-skills 152
arboreto Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.
Microck/ordinary-claude-skills 152
alphafold-database Access AlphaFold's 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology.
Microck/ordinary-claude-skills 152
AgentDB Vector Search Implement semantic vector search with AgentDB for intelligent document retrieval, similarity matching, and context-aware querying. Use when building RAG systems, semantic search engines, or intelligent knowledge bases.
Microck/ordinary-claude-skills 152
web-research Use this skill for requests related to web research; it provides a structured approach to conducting comprehensive web research
Microck/ordinary-claude-skills 152
langgraph-docs Use this skill for requests related to LangGraph in order to fetch relevant documentation to provide accurate, up-to-date guidance.
Microck/ordinary-claude-skills 152
benchling-integration Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
Microck/ordinary-claude-skills 152
blog-post-writer Transform brain dumps into polished blog posts in Nick Nisi's voice. Use when the user wants to write a blog post with scattered ideas, talking points, and conclusions that need organization into a cohesive narrative with Nick's conversational, authentic, and thoughtful tone.
Microck/ordinary-claude-skills 152
compound-docs Capture solved problems as categorized documentation with YAML frontmatter for fast lookup
Microck/ordinary-claude-skills 152
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.
Microck/ordinary-claude-skills 152
create-skill Guide for creating effective skills. This skill should be used when users want to create a new skill (or update an existing skill) that extends your capabilities with specialized knowledge, workflows, or tool integrations.
Microck/ordinary-claude-skills 152
create-skill-file Guides Claude in creating well-structured SKILL.md files following best practices. Provides clear guidelines for naming, structure, and content organization to make skills easy to discover and execute.
Microck/ordinary-claude-skills 152
cobrapy Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Microck/ordinary-claude-skills 152