geniml
This skill should be used when working with genomic interval data (BED files) for machine learning tasks. Use for training region embeddings (Region2Vec, BEDspace), single-cell ATAC-seq analysis (scEmbed), building consensus peaks (universes), or any ML-based analysis of genomic regions. Applies to BED file collections, scATAC-seq data, chromatin accessibility datasets, and region-based genomic feature learning.
gene-database
Query NCBI Gene via E-utilities/Datasets API. Search by symbol/ID, retrieve gene info (RefSeqs, GO, locations, phenotypes), batch lookups, for gene annotation and functional analysis.
etetoolkit
Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics.
esm
Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequence, structure, and function) and ESM C (efficient protein embeddings and representations). Use this skill when working with protein sequences, structures, or function prediction; designing novel proteins; generating protein embeddings; performing inverse folding; or conducting protein engineering tasks. Supports both local model usage and cloud-based Forge API for scalable inference.
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.
pufferlib
High-performance reinforcement learning framework optimized for speed and scale. Use when you need fast parallel training, vectorized environments, multi-agent systems, or integration with game environments (Atari, Procgen, NetHack). Achieves 2-10x speedups over standard implementations. For quick prototyping or standard algorithm implementations with extensive documentation, use stable-baselines3 instead.
statsmodels
Statistical models library for Python. Use when you need specific model classes (OLS, GLM, mixed models, ARIMA) with detailed diagnostics, residuals, and inference. Best for econometrics, time series, rigorous inference with coefficient tables. For guided statistical test selection with APA reporting use statistical-analysis.
statistical-analysis
Guided statistical analysis with test selection and reporting. Use when you need help choosing appropriate tests for your data, assumption checking, power analysis, and APA-formatted results. Best for academic research reporting, test selection guidance. For implementing specific models programmatically use statsmodels.
stable-baselines3
Production-ready reinforcement learning algorithms (PPO, SAC, DQN, TD3, DDPG, A2C) with scikit-learn-like API. Use for standard RL experiments, quick prototyping, and well-documented algorithm implementations. Best for single-agent RL with Gymnasium environments. For high-performance parallel training, multi-agent systems, or custom vectorized environments, use pufferlib instead.
shap
Model interpretability and explainability using SHAP (SHapley Additive exPlanations). Use this skill when explaining machine learning model predictions, computing feature importance, generating SHAP plots (waterfall, beeswarm, bar, scatter, force, heatmap), debugging models, analyzing model bias or fairness, comparing models, or implementing explainable AI. Works with tree-based models (XGBoost, LightGBM, Random Forest), deep learning (TensorFlow, PyTorch), linear models, and any black-box model.
scikit-learn
Machine learning in Python with scikit-learn. Use when working with supervised learning (classification, regression), unsupervised learning (clustering, dimensionality reduction), model evaluation, hyperparameter tuning, preprocessing, or building ML pipelines. Provides comprehensive reference documentation for algorithms, preprocessing techniques, pipelines, and best practices.
pytorch-lightning
Deep learning framework (PyTorch Lightning). Organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, implement data pipelines, callbacks, logging (W&B, TensorBoard), distributed training (DDP, FSDP, DeepSpeed), for scalable neural network training.
polars
Fast in-memory DataFrame library for datasets that fit in RAM. Use when pandas is too slow but data still fits in memory. Lazy evaluation, parallel execution, Apache Arrow backend. Best for 1-100GB datasets, ETL pipelines, faster pandas replacement. For larger-than-RAM data use dask or vaex.
beads-retrospective
PROACTIVELY analyze completed Beads issues to identify patterns, tech debt, and gaps. Suggests new OpenSpec proposals based on discovered work. Use after closing issues or when user asks "what should we work on next?"
openspec-to-beads
PROACTIVELY convert approved OpenSpec specs into Beads issues when user applies a change or explicitly approves implementation. Creates trackable work with dependencies, discovers gaps, and maintains audit trail between planning and execution.
tdd
PROACTIVELY enforce Test-Driven Development when implementing features or fixing bugs. Ensures tests are written BEFORE code. Use for new methods, services, repositories, or bug fixes. Guides RED-GREEN-REFACTOR cycle.
template-skill
Replace with description of the skill and when Claude should use it.
skill-creator
Guide for creating effective skills. Use this skill when you want to create a new skill (or update an existing skill) that extends Claude's capabilities with specialized knowledge, workflows, or tool integrations.
frontend-design
Create distinctive, production-grade frontend interfaces with high design quality. Use this skill when the user asks to build web components, pages, or applications. Generates creative, polished code that avoids generic AI aesthetics.
Comprehensive PDF manipulation toolkit for extracting text and tables, creating new PDFs, merging/splitting documents, and handling forms. When Claude needs to fill in a PDF form or programmatically process, generate, or analyze PDF documents at scale.
frontend-patterns
Build React components and pages in IdeaForge frontend. Triggers: new component, dark mode, API calls, React Context, SSE streams, Tailwind styling. Stack: Next.js 16 App Router, React 19, TypeScript, Tailwind, next-themes.
idea-generation
Work with IdeaForge's AI idea generation system. Triggers: generation flow, AI prompts, scoring system, duplicate detection, real-time logs, generation debugging. Pipeline: API → PromptBuilder → AI → Parse → Dedupe → Save.
theme-factory
Toolkit for styling artifacts with a theme. These artifacts can be slides, docs, reports, HTML landing pages, etc. There are 10 pre-set themes with colors/fonts that you can apply to any artifact, or generate a new theme on-the-fly.
pptx
Presentation creation, editing, and analysis. When Claude needs to work with presentations (.pptx files) for (1) Creating new presentations, (2) Modifying or editing content, (3) Working with layouts, (4) Adding comments or speaker notes, or any other presentation tasks.
xlsx
Comprehensive spreadsheet work including creation, editing, and analysis of Excel files (.xlsx, .xlsm, .csv, .tsv). When Claude needs to work with spreadsheets for data analysis, financial modeling, or any Excel-related tasks.
database-changes
Make database schema changes in IdeaForge. Triggers: create migration, add table/column, modify column type, add index, use JSONB, use pgvector. File-based migrations with raw SQL, no ORM.
api-endpoint
Create or modify API endpoints in IdeaForge backend. Triggers: new route, controller, service, repository, CRUD operation, Zod validation, API debugging. Pattern: Routes → Controller → Service → Repository.
brand-guidelines
IdeaForge brand identity - colors, typography, and visual guidelines. Use when styling UI components, creating marketing materials, or ensuring brand consistency.
docx
Comprehensive document creation, editing, and analysis with support for tracked changes, comments, formatting preservation, and text extraction. When Claude needs to work with professional documents (.docx files) for (1) Creating new documents, (2) Modifying or editing content, (3) Working with tracked changes, (4) Adding comments, or any other document tasks.
svg-icon-maker
Generate production-quality SVG icons with COLOR support using VTracer vectorization. Converts raster images to clean, colorful SVG paths.
world-labs-image-prompt
Single image input for world generation - requirements, best practices, and examples
world-labs-api
World Labs Marble API integration - authentication, endpoints, models, and media uploads
world-labs-chisel
Chisel 3D blocking tool for world generation - geometry, walls, and reference models
world-labs-export
World Labs export formats - Gaussian splats, meshes, images, and engine integrations
world-labs-pano-video
Panorama and video input for world generation - maximum layout control
world-labs-text-prompt
Text-to-world generation best practices, prompt structure, style descriptors
world-labs-multi-image
Multi-image input with direction control and auto layout for world generation
world-labs-studio
World Labs Studio - Compose multiple worlds, record camera animations, and expand boundaries
effect-ts-guide
Teach and apply Effect-TS practices (effect, @effect/schema, @effect/platform) for architecture, typed errors, Layers, dependency injection, resource safety, testing, and migration from async/await/Promise. Use when a user asks how to use Effect, requests best practices, wants to refactor to Effect, or needs mapping from platform modules to Node/Bun/Browser APIs.
faion
Faion umbrella for solopreneur dev work. AUTO-INVOKE on ANY of: (a) domain methodology lookup across 20 canonical knowledge domains (~2628 methodologies — dev, backend, frontend, infra, ai-core, ai-agents, ml-engineering, sdlc-ai, pm, product, ba, marketing, research, ux, sdd, architecture, security, comms, hr, claude-code); (b) playbook how-to (455 guides at playbooks/<goal>/<slug>/) organised by 11 goal-character categories; (c) multi-agent brainstorming / diverge-converge / 'give me 10 ideas' (MUST ASK USER FIRST if brainstorm wasn't explicitly requested); (d) single-feature or batch SDD execution (study → clarify → plan → wave-execute → verify → review → fix → close); (e) session-based improvement / system audit / 'що ми зробили' / 'find issues'; (f) AI media pipeline construction (TG channel + site + automation); (g) self-replenishing background agent pool for long task queues; (h) a task-shaped need that wants a *pipeline* rather than a document — 'build a research-first product', 'run an SDD feature end to end', 'write and translate an article', 'audit this tree and fix what the audit blocks' — routed to recipes/INDEX.xml (4 composable pipelines), with fragments/INDEX.xml (role prompts) and tools/INDEX.xml (runnable scripts) beneath it. Two-level retrieval: reads L1 (knowledge/domains.xml + playbooks/taxonomy.xml + recipes/INDEX.xml) first, picks ≤3 candidate buckets, then reads only those L2 INDEX.xml before opening any leaf methodology.
tonejs
Web Audio framework for creating interactive music in browsers. Use when building audio applications, synthesizers, musical instruments, effects processors, audio visualizations, DAWs, step sequencers, or any browser-based sound generation. Handles synthesis, scheduling, sample playback, effects, and audio routing.
elysiajs
Create backend with ElysiaJS, a type-safe, high-performance framework.
ui-skills
Opinionated constraints for building better interfaces with agents.
run-gemini
向助手发出协助请求，适用于长文阅读理解、网络搜索、网页读取、文章翻译、网页与前端界面制作等任务场景。
run-iflow
向助手发出协助请求，适用中华文化理解、中文古文理解、中国特色作品创作、小红书与抖音的宣发文案编写、编写测试用例、信息检索等任务场景，同时也是其他专家助手的强力替补与协助，可以作为大部分认为的备选候补方案。
run-claude
向助手发出协助请求，适用于需要在隔离的独立环境中执行复杂编程任务、任务规划、文稿撰写的场景。
run-codex
向助手发出协助请求，适用于代码审核、逻辑推理、科学与哲学思考、深度分析、策略制定、市场分析等任务场景。
reminder
当用户提到需要记住的未来任务、约会或事件时创建提醒和日历事件。在诸如"提醒我"、"设置提醒"、"我有个会"、"别忘了"或任何提及未来基于时间的任务时触发。
commit
当需要对 git repo 生成提交（commit）信息时，务必使用本Skill
chinese-output
在输出包含中文字符与中文标点符号、编写中文文档、根据中文文档生成中文的交互回应、回复用户用中文提出的问题或任务、需要进行中文与非中文混排操作等涉及中文文字与标点符号的使用的场景中，必须使用本 Skill 以获得专业的中文字符的操作指导与行为规范引导。
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