Claude Skills by NVlabs

Writes scientific manuscripts in full flowing paragraphs (never bullet points) via a two-stage process — section outlines with key points using research-lookup, then conversion to prose — applying IMRAD structure, citations (APA/AMA/Vancouver), figures/tables, and reporting guidelines (CONSORT/STROBE/PRISMA). Use when drafting or revising research papers, journal submissions, or any manuscript section (abstract, introduction, methods, results, discussion), or professional/technical reports. F...

Analyze biological data with scikit-bio — sequence analysis and alignments, phylogenetic trees, alpha/beta diversity metrics (including UniFrac), ordination (PCoA), PERMANOVA statistics, and FASTA/Newick I/O. Use for microbiome and community-ecology analysis — computing diversity, distance matrices, and ordination from feature tables. Part of the AlterLab Academic Skills suite.

Classical machine learning in Python with scikit-learn — algorithms, preprocessing, pipelines, and best-practice reference documentation. Use when working with supervised learning (classification, regression), unsupervised learning (clustering, dimensionality reduction), model evaluation, hyperparameter tuning, feature preprocessing, or building ML pipelines. Part of the AlterLab Academic Skills suite.

Run RNA velocity analysis with scVelo on single-cell RNA-seq data — estimate cell-state transitions from spliced/unspliced mRNA dynamics, infer trajectory direction, compute latent time, and identify driver genes. Use when adding directionality to trajectories or studying differentiation dynamics from spliced/unspliced layers (velocyto/STARsolo output); for the general QC, clustering, UMAP, and differential-expression analysis pipeline prefer alterlab-scanpy instead, and for .h5ad data-struct...

Train deep generative models for single-cell omics with scvi-tools — probabilistic batch correction and integration (scVI), reference-mapping transfer learning (scArches), differential expression with uncertainty, and multimodal models (totalVI for CITE-seq, MultiVI for multiome). Use when correcting batch effects, integrating multimodal data, or doing advanced probabilistic single-cell modeling — for standard analysis pipelines use scanpy. Part of the AlterLab Academic Skills suite.

Model interpretability and explainability with SHAP (SHapley Additive exPlanations) — feature importance and plots (waterfall, beeswarm, bar, scatter, force, heatmap). Use when explaining ML model predictions, computing feature importance, debugging models, analyzing bias or fairness, comparing models, or implementing explainable AI across tree-based models (XGBoost, LightGBM, Random Forest), deep learning (TensorFlow, PyTorch), linear models, and any black-box model. Part of the AlterLab Aca...

Process-based discrete-event simulation in Python with SimPy — processes, queues, shared resources, and time-based events. Use when simulating systems where entities contend for shared resources over time, such as manufacturing systems, service operations, network traffic, or logistics. Part of the AlterLab Academic Skills suite.

Guides advanced social science research methods — discourse analysis (Fairclough CDA, Gee), conversation analysis, quantitative content analysis, Qualitative Comparative Analysis (QCA), process tracing, archival research, participatory/community-based research (PAR, CBPR), Delphi and Q methodology, social network analysis (SNA), bibliometrics and scientometrics, systematic mapping reviews, and program/policy evaluation. Use when designing or conducting any of these studies — choosing a specia...

Trains single-agent reinforcement learning agents with Stable-Baselines3 — PPO, SAC, DQN, TD3, DDPG, and A2C behind a scikit-learn-like API. Use for standard single-agent RL experiments, quick prototyping, well-documented algorithm implementations on Gymnasium environments, or adding callbacks and evaluation. For high-throughput parallel training, multi-agent systems, or custom vectorized environments prefer alterlab-pufferlib. Part of the AlterLab Academic Skills suite.

Guided statistical analysis with hypothesis-test selection, assumption checking, power analysis, and APA-formatted reporting. Use when choosing the appropriate statistical test for data, verifying test assumptions, computing power/sample size, or producing APA-style results for academic research. For implementing specific models programmatically prefer statsmodels. Part of the AlterLab Academic Skills suite.

Statistical modeling in Python with statsmodels — OLS, GLM, mixed models, and ARIMA with detailed diagnostics, residuals, and inference. Use when fitting specific model classes for econometrics, time series, or rigorous inference with coefficient tables and confidence intervals. For guided statistical test selection with APA reporting prefer statistical-analysis. Part of the AlterLab Academic Skills suite.

Query the STRING API for protein-protein interactions (59M proteins, 20B interactions across 5000+ species), building interaction networks, discovering functional partners, and running GO/KEGG/Pfam enrichment on protein lists. Use when constructing a protein-protein interaction network, expanding from seed proteins to functional partners, or running PPI-based enrichment for systems biology; for curated metabolic pathway maps and reactions prefer alterlab-kegg, and for protein sequences, annot...

Comprehensive survey and instrument design assistant supporting questionnaire construction, Likert scale design, question types (open/closed/matrix), response bias mitigation, sampling strategies (probability/non-probability), pilot testing, instrument validation (Cronbach's alpha, factor analysis), online survey tools (Qualtrics, REDCap, Google Forms), interview protocol development, focus group facilitation, mixed-mode surveys, and cultural adaptation of instruments. Use when designing a su...

Designs courses and teaching materials using backward design (Wiggins & McTighe), constructive alignment (Biggs), and Bloom's taxonomy alignment, generating rubrics, formative and summative assessments, syllabi, lesson plans, inclusive-pedagogy guidance, and online/hybrid course architecture. Use when the request mentions course design, syllabus, learning outcomes, rubric, assessment design, lesson plan, backward design, constructive alignment, Bloom's taxonomy, curriculum mapping, course red...

Supervises theses and dissertations end to end — structure guidance from proposal through defense, chapter-by-chapter writing support (introduction, literature review, methodology, results, discussion), supervision strategies, committee management, defense and viva voce preparation, timeline planning, feedback integration, examiner-expectation guidance, and formatting (APA 7, Chicago, university styles). Use when the request mentions thesis, dissertation, supervision, defense preparation, viv...

Zero-shot univariate time-series forecasting with Google's TimesFM foundation model, producing point forecasts and prediction intervals from CSV/DataFrame/array inputs, with a preflight system checker for RAM/GPU. Use to forecast any univariate series (sales, sensors, energy, vitals, weather) without training a custom model. Part of the AlterLab Academic Skills suite.

Graph Neural Networks with PyTorch Geometric (PyG) — node and graph classification, link prediction, GCN, GAT, and GraphSAGE layers, heterogeneous graphs, and molecular property prediction. Use when building or training GNNs for geometric deep learning on graph-structured data. Part of the AlterLab Academic Skills suite.

Builds PyTorch-native graph neural networks with TorchDrug for molecules and proteins, exposing custom GNN architectures, task/dataset abstractions, molecular generation, retrosynthesis planning, and knowledge-graph reasoning. Use when developing custom graph model layers, predicting protein properties from sequence or structure, or building retrosynthesis and drug-repurposing pipelines; for ready-made featurizers, MoleculeNet benchmarks, and pre-trained models with less code prefer alterlab-...

Nonlinear dimensionality reduction with UMAP — fast manifold learning for 2D/3D visualization, clustering preprocessing (e.g., HDBSCAN), and supervised or parametric UMAP. Use when projecting high-dimensional data to low dimensions for visualization, embedding generation, or as a preprocessing step before clustering. Part of the AlterLab Academic Skills suite.

Provide direct REST API access to UniProt (Swiss-Prot/TrEMBL) for protein sequence searches, FASTA retrieval, functional annotations (GO terms, domains), and cross-database ID mapping. Use when looking up a protein entry, fetching a protein FASTA sequence, or mapping accessions between databases over raw HTTP/REST; for EXPERIMENTAL 3D structures prefer alterlab-pdb, for AI-PREDICTED 3D structures prefer alterlab-alphafold-db, for protein-protein interaction networks prefer alterlab-string-db,...

Queries the U.S. Treasury Fiscal Data API across 54 datasets and 182 data tables (no API key required) for federal financial data on national debt, government spending, revenue, interest rates, exchange rates, and savings bonds. Use when working with U.S. federal fiscal data, national debt tracking (Debt to the Penny), Daily Treasury Statements, Monthly Treasury Statements, Treasury securities auctions, interest rates on Treasury securities, foreign exchange rates, savings bonds, or any U.S. ...

Out-of-core tabular analytics with Vaex for billion-row datasets that exceed RAM — lazy evaluation, fast aggregations, big-data visualization, and ML on a single machine. Use when working with large CSV/HDF5/Arrow/Parquet files, computing fast statistics on massive datasets, visualizing big data, or building ML pipelines that do not fit in memory. For distributed clusters prefer dask; for in-memory speed prefer polars. Part of the AlterLab Academic Skills suite.

This skill should be used when the user asks about "color theory", "color palette", "color scheme", "color psychology", "WCAG contrast", "contrast ratio", "color accessibility", "color systems", "Munsell", "Itten color wheel", "HSL", "HSB", "color harmony", "complementary colors", "analogous colors", "triadic colors", "color grading", "brand colors", "act as a color theorist", "color theorist mode", "palette generation", "color meaning", "cultural color associations", "color in design", "colo...

This skill should be used when the user asks about "design critique", "design review", "portfolio review", "visual analysis", "design writing", "design criticism", "formal analysis", "semiotic analysis", "design history", "design essay", "act as a design critic", "design critic mode", "critique my design", "review my portfolio", "design feedback", "visual rhetoric", "design theory", "composition analysis", "typography critique", "layout analysis", "design principles evaluation", "Gestalt anal...

This skill should be used when the user asks about "exhibition design", "wayfinding", "wayfinding design", "spatial graphics", "environmental design", "signage system", "event design", "museum design", "trade show design", "environmental graphics", "act as an exhibition designer", "exhibition designer mode", "gallery layout", "visitor flow", "ADA signage", "accessible signage", "directional signs", "information kiosk", "exhibition identity", "spatial hierarchy", "venue branding", "event brand...

This skill should be used when the user asks about "infographic", "data visualization", "information design", "data viz", "chart design", "visual storytelling with data", "information graphics", "statistical graphics", "diagram design", "act as an infographic designer", "infographic mode", "data-ink ratio", "chart selection", "dashboard design", "visual data", "Tufte", "ISOTYPE", "icon array", "pie chart", "bar chart", "flow diagram", "process visualization", "data story", or needs expertise ...

This skill should be used when the user asks about "layout design", "editorial design", "grid system", "magazine layout", "book design", "publication design", "page layout", "spread design", "Swiss grid", "modular grid", "column grid", "act as a layout designer", "layout designer mode", "print design", "editorial layout", "page composition", "white space", "bleed and margins", "InDesign layout", "multi-page document", "annual report design", "catalog design", "zine design", or needs expertise...

This skill should be used when the user asks about "motion graphics", "motion design", "title sequence", "kinetic typography", "explainer animation", "motion branding", "animated logo", "lower thirds", "broadcast design", "After Effects", "act as a motion graphics designer", "motion graphics mode", "animation principles", "ease curves", "timing and spacing", "transition design", "animated infographic", "intro animation", "outro animation", "bumper", "ident", "stinger", "lyric video", "animate...

This skill should be used when the user asks about "packaging design", "product packaging", "label design", "dieline", "die line", "structural design", "box design", "unboxing experience", "shelf impact", "packaging mockup", "package prototype", "regulatory compliance packaging", "nutrition label", "barcode placement", "sustainable packaging", "packaging materials", "act as a packaging designer", "packaging designer mode", "carton design", "bottle label", "pouch design", "retail packaging", "...

This skill should be used when the user asks about "photo editing", "image editing", "retouching", "photo retouching", "photo essay", "photo curation", "AI photo editing", "color grading photography", "Lightroom", "Photoshop", "image compositing", "photo narrative", "editorial photography", "act as a photo editor", "photo editor mode", "image correction", "exposure adjustment", "white balance", "skin retouching", "photo story", "picture editing", "batch editing photos", "RAW processing", "pho...

This skill should be used when the user asks about "typography", "type design", "font selection", "font pairing", "typographic hierarchy", "typographic grid", "type scale", "readability", "legibility", "kerning", "leading", "tracking", "typeface classification", "serif vs sans-serif", "modular scale", "act as a typographer", "typographer mode", "type system", "web typography", "variable fonts", "responsive typography", "paragraph spacing", "baseline grid", or needs expertise in type selection...

This skill should be used when the user asks about "UI design", "user interface design", "wireframing", "wireframe", "design system", "component library", "app design", "web interface design", "mobile UI", "atomic design", "8pt grid", "Material Design", "Human Interface Guidelines", "HIG", "design tokens", "responsive design", "act as a UI designer", "UI designer mode", "interface patterns", "UI kit", "navigation design", "form design", "dashboard layout", "button styles", "input fields", "ca...

Chunked, compressed N-dimensional arrays for cloud storage with Zarr — parallel I/O, S3/GCS integration, and NumPy/Dask/Xarray compatibility. Use when storing or reading large N-D scientific arrays, streaming chunked data to/from cloud object stores, or building large-scale scientific computing pipelines. Part of the AlterLab Academic Skills suite.

Access the ZINC database of 230M+ commercially available (purchasable) compounds, searching by ZINC ID or SMILES, running similarity searches, and downloading 3D-ready structures. Use when assembling a compound library for virtual screening, finding purchasable analogs, or obtaining docking-ready 3D structures for drug discovery. Part of the AlterLab Academic Skills suite.

Create "[Competitor] alternative" and comparison pages for developer tools. Build honest, high-converting comparison content that ranks for competitive search terms. Trigger phrases: "alternatives page", "comparison page", "vs page", "[competitor] alternative", "competitor comparison", "competitive content", "comparison table", "migration guide", "switch from [competitor]", "compare to [competitor]", "alternative to"

Generates Angular code and provides architectural guidance. Trigger when creating projects, components, or services, or for best practices on reactivity (signals, linkedSignal, resource), forms, dependency injection, routing, SSR, accessibility (ARIA), animations, styling (component styles, Tailwind CSS), testing, or CLI tooling.

Catalogue of known SDLC anti-patterns that great_cto agents must actively reject when reviewing architecture, plans, code, or post-mortems. Used by architect (pre-impl), pm (planning), senior-dev (impl), l3-support (post-incident).

Reduce time-to-first-API-call (TTFAC) by optimizing every step of the developer onboarding journey. This skill covers authentication simplification, sandbox environments, interactive documentation, and identifying and eliminating common failure points. Trigger phrases: "API onboarding", "time to first API call", "TTFAC", "developer onboarding", "first API call", "auth simplification", "sandbox environment", "interactive docs", "try it now", "API playground", "developer activation", "onboardi...

Guide for building React applications with Apollo Client 4.x. Use this skill when: (1) setting up Apollo Client in a React project, (2) writing GraphQL queries or mutations with hooks, (3) configuring caching or cache policies, (4) managing local state with reactive variables, (5) troubleshooting Apollo Client errors or performance issues.

Guide for authoring Apollo Federation subgraph schemas. Use this skill when: (1) creating new subgraph schemas for a federated supergraph, (2) defining or modifying entities with @key, (3) sharing types/fields across subgraphs with @shareable, (4) working with federation directives (@external, @requires, @provides, @override, @inaccessible), (5) troubleshooting composition errors, (6) any task involving federation schema design patterns.

Guide for building Apple-platform applications with Apollo iOS, the strongly-typed GraphQL client for Swift. Use this skill when: (1) adding Apollo iOS to a Swift Package Manager or Xcode project, (2) configuring `apollo-codegen-config.json` and running code generation, (3) configuring an `ApolloClient` with auth, interceptors, and caching, (4) writing queries, mutations, or subscriptions from SwiftUI views, (5) writing tests against generated operation mocks.

Guide for building applications with Apollo Kotlin, the GraphQL client library for Android and Kotlin. Use this skill when: (1) setting up Apollo Kotlin in a Gradle project for Android, Kotlin/JVM, or KMP, (2) configuring schema download and codegen for GraphQL services, (3) configuring an `ApolloClient` with auth, interceptors, and caching, (4) writing queries, mutations, or subscriptions,

Version-aware guide for configuring and running Apollo Router for federated GraphQL supergraphs. Generates correct YAML for both Router v1.x and v2.x. Use this skill when: (1) setting up Apollo Router to run a supergraph, (2) configuring routing, headers, or CORS, (3) implementing custom plugins (Rhai scripts or coprocessors), (4) configuring telemetry (tracing, metrics, logging), (5) troubleshooting Router performance or connectivity issues.

Guide for designing GraphQL schemas following industry best practices. Use this skill when: (1) designing a new GraphQL schema or API, (2) reviewing existing schema for improvements, (3) deciding on type structures or nullability, (4) implementing pagination or error patterns, (5) ensuring security in schema design.

Guide for using Apollo Rover CLI to manage GraphQL schemas and federation. Use this skill when: (1) publishing or fetching subgraph/graph schemas, (2) composing supergraph schemas locally or via GraphOS, (3) running local supergraph development with rover dev, (4) validating schemas with check and lint commands, (5) configuring Rover authentication and environment, (6) exploring or searching a graph's schema for agent-driven discovery (rover schema describe / rover schema search).

Guide for creating effective skills for Apollo GraphQL and GraphQL development. Use this skill when: (1) users want to create a new skill, (2) users want to update an existing skill, (3) users ask about skill structure or best practices, (4) users need help writing SKILL.md files.

Shared review framework that every domain reviewer (pci, oracle, gov, edtech, healthcare, mlops, etc.) MUST follow. Defines the output artifact (TM-{slug}.md), mandatory sections, severity scale, verdict format, the workflow scaffold (when-invoked, Step-0 read-inputs, HANDOFF), and the "domain heuristic vs generic check" boundary. Eliminates duplication across the ~30 reviewer prompts.

Master the essential audio post-production techniques—normalization, compression, EQ, and noise reduction—using the correct processing order to achieve professional-quality audio. Use when: Editing podcast episodes or video soundtracks; Cleaning up recorded voiceovers; Improving audio quality for marketing content; Preparing audio files for distribution; Troubleshooting common audio issues

Create memorable sonic logos using design principles from Intel, Netflix, and McDonald's—crafting 2-5 second audio signatures that achieve instant brand recognition. Use when: Creating a sonic logo for a brand; Evaluating audio logo proposals from agencies; Understanding what makes sonic logos effective; Briefing sound designers on logo requirements; Analyzing competitor sonic logos

Master ACX-compliant audiobook production using Audible's technical standards and Richard Mayer's multimedia learning principles for engaging, professional audio. Use when: Producing an audiobook for Audible/ACX distribution; Creating audio versions of courses or written content; Setting up narration workflow for long-form content; Ensuring audio meets professional distribution standards; Self-producing an audiobook as an author