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Topic: codex

8,457 skills in this topic.

skill-creator 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 Codex's capabilities with specialized knowledge, workflows, or tool integrations.
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deepchem Molecular ML with diverse featurizers and pre-built datasets. Use for property prediction (ADMET, toxicity) with traditional ML or GNNs when you want extensive featurization options and MoleculeNet benchmarks. Best for quick experiments with pre-trained models, diverse molecular representations. For graph-first PyTorch workflows use torchdrug; for benchmark datasets use pytdc.
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autonomous-builder Full-stack autonomous software development agent: handles design, implementation, testing, and deployment end-to-end. Auto-activates for project creation, feature development, bug fixing, code refactoring, or when user requests 'build', 'create', 'implement', 'develop', 'fix', or 'refactor' any software project.
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evaluating-machine-learning-models Build this skill allows AI assistant to evaluate machine learning models using a comprehensive suite of metrics. it should be used when the user requests model performance analysis, validation, or testing. AI assistant can use this skill to assess model accuracy, p... Use when appropriate context detected. Trigger with relevant phrases based on skill purpose.
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evaluating-llms-harness Evaluates LLMs across 60+ academic benchmarks (MMLU, HumanEval, GSM8K, TruthfulQA, HellaSwag). Use when benchmarking model quality, comparing models, reporting academic results, or tracking training progress. Industry standard used by EleutherAI, HuggingFace, and major labs. Supports HuggingFace, vLLM, APIs.
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dask Parallel/distributed computing. Scale pandas/NumPy beyond memory, parallel DataFrames/Arrays, multi-file processing, task graphs, for larger-than-RAM datasets and parallel workflows.
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gget CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, genome downloads. For advanced BLAST/batch processing, use biopython. For multi-database integration, use bioservices.
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anomaly-detector Anomaly Detector - Auto-activating skill for Data Analytics. Triggers on: anomaly detector, anomaly detector Part of the Data Analytics skill category.
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architecture-patterns Implement proven backend architecture patterns including Clean Architecture, Hexagonal Architecture, and Domain-Driven Design. Use when architecting complex backend systems or refactoring existing applications for better maintainability.
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designing-experiments Selects the appropriate quasi-experimental method (DiD, ITS, SC) based on data structure and research questions. Use when the user is unsure which method to apply.
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literature-matrix Systematic research idea discovery through paper combination matrix. Use when finding research ideas, evaluating paper combinations, building unified theoretical frameworks, or generating code skeletons from combined methods.
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docs-review Review documentation changes for compliance with the Metabase writing style guide. Use when reviewing pull requests, files, or diffs containing documentation markdown files.
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docs-write Write documentation following Metabase's conversational, clear, and user-focused style. Use when creating or editing documentation files (markdown, MDX, etc.).
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engineering-features-for-machine-learning Execute create, select, and transform features to improve machine learning model performance. Handles feature scaling, encoding, and importance analysis. Use when asked to "engineer features" or "select features". Trigger with relevant phrases based on skill purpose.
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ena-database Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by accession, for genomics and bioinformatics pipelines. Supports multiple formats.
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lamindb This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets (scRNA-seq, spatial, flow cytometry, etc.), tracking computational workflows, curating and validating data with biological ontologies, building data lakehouses, or ensuring data lineage and reproducibility in biological research. Covers data management, annotation, ontologies (genes, cell types, diseases, tissues), schema validation, integrations with workflow managers (Nextflow, Snakemake) and MLOps platforms (W&B, MLflow), and deployment strategies.
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doc Use when the task involves reading, creating, or editing `.docx` documents, especially when formatting or layout fidelity matters; prefer `python-docx` plus the bundled `scripts/render_docx.py` for visual checks.
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gtars High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.
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figma Use the Figma MCP server to fetch design context, screenshots, variables, and assets from Figma, and to translate Figma nodes into production code. Trigger when a task involves Figma URLs, node IDs, design-to-code implementation, or Figma MCP setup and troubleshooting.
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fda-database Query openFDA API for drugs, devices, adverse events, recalls, regulatory submissions (510k, PMA), substance identification (UNII), for FDA regulatory data analysis and safety research.
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skill-installer Install Codex skills into $CODEX_HOME/skills from a curated list or a GitHub repo path. Use when a user asks to list installable skills, install a curated skill, or install a skill from another repo (including private repos).
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manuscript-as-code Treat manuscripts as software: version control, reproducible builds, figure pipelines, CI, and structured repo layout. Helps teams avoid 'final_v7' chaos and ensures submission-ready artifacts.
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Error Resolver Systematic error diagnosis and resolution using first-principle analysis. Use when encountering any error message, stack trace, or unexpected behavior. Supports replay functionality to record and reuse solutions.
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aios-devops GitHub Repository Manager & DevOps Specialist (Gage). Use for repository operations, version management, CI/CD, quality gates, and GitHub push operations. ONLY agent authorized...
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