Claude Skills by NVlabs

Builds INTERACTIVE charts with the Plotly Python library (plotly.express / graph_objects) — hover tooltips, zoom/pan, animations, rangesliders, 3D rotation, and standalone HTML/web-embeddable output. Use when a chart must be interactive or web-embedded, for dashboards (incl. Dash), exploratory data analysis, or rotatable 3D plots. For static publication figures defer to alterlab-matplotlib; for static statistical charts (heatmaps, distributions) defer to alterlab-seaborn; for diagrams/schemat...

Fast in-memory DataFrame analytics with Polars — lazy evaluation, parallel execution, and an Apache Arrow backend for datasets that fit in RAM. Use when pandas is too slow but data still fits in memory, for 1-100GB datasets, ETL pipelines, or a faster pandas replacement. For larger-than-RAM data prefer dask or vaex. Part of the AlterLab Academic Skills suite.

Creates research posters in HTML/CSS with responsive layouts and easy visual integration, exportable to PDF or PPTX. Use ONLY when the user explicitly requests a PowerPoint/PPTX/PPT poster, an HTML/web-based poster, or a poster they will edit in PowerPoint, or when LaTeX is unavailable. For a standard/conference research poster with no format named, use alterlab-latex-posters instead; for a slide deck/oral-talk presentation, use alterlab-scientific-slides. Part of the AlterLab Academic Skills...

This skill should be used when the user asks about "brand analysis", "brand audit", "brand equity", "brand positioning", "competitive intelligence", "Keller CBBE model", "Aaker brand model", "brand identity prism", "brand health", "perceptual mapping", "act as a brand analyst", "brand analyst mode", "brand architecture", "brand scorecard", "brand tracking", "brand differentiation", "brand portfolio", "endorsed brand", "hybrid brand architecture", "competitive brand analysis", or needs experti...

This skill should be used when the user asks about "campaign strategy", "IMC planning", "integrated marketing communications", "campaign architecture", "strategic brief", "ROSTIR model", "campaign plan", "act as a campaign strategist", "campaign strategist mode", "communication strategy", "campaign framework", "strategic planning for advertising", "RACE model", "PESO model", "media mix", "campaign evaluation", "campaign one-pager", "big idea", "campaign phasing", "campaign budget", or needs e...

This skill should be used when the user asks about "consumer insights", "audience research", "buyer personas", "customer journey mapping", "survey design", "focus group guide", "target audience analysis", "psychographics", "consumer behavior", "audience segmentation", "act as a consumer researcher", "consumer insight mode", "empathy mapping", "research debrief", "qualitative research", "quantitative research", "ethnography", "depth interviews", "laddering technique", "means-end chain", "consu...

This skill should be used when the user asks about "creative brief", "communication brief", "single-minded proposition", "SMP", "one-page brief", "briefing the creative team", "writing a brief", "agency brief", "campaign brief", "act as a brief writer", "creative brief mode", "strategic brief", "key message development", "target audience brief", or needs expertise in writing concise, inspiring creative briefs that direct campaign development. Part of the AlterLab FC Skills collection (Public ...

This skill should be used when the user asks about "CSR campaign", "corporate social responsibility", "cause marketing", "social impact campaign", "purpose-driven marketing", "theory of change", "impact measurement", "sustainability communication", "act as a CSR designer", "CSR designer mode", "social cause campaign", "ESG communication", "cause-related marketing", or needs expertise in designing social responsibility campaigns with measurable impact and authentic brand alignment. Part of the...

This skill should be used when the user asks about "market research", "market analysis", "PESTEL analysis", "competitive landscape", "trend report", "industry analysis", "market sizing", "data interpretation", "competitive analysis", "act as a market researcher", "market research mode", "market trends", "SWOT analysis", "market opportunity", or needs expertise in analyzing markets, interpreting data, and producing strategic market intelligence reports. Part of the AlterLab FC Skills collectio...

This skill should be used when the user asks about "media planning", "media strategy", "media buying", "channel selection", "budget allocation", "CPM", "GRP", "reach and frequency", "media mix", "flighting schedule", "media flowchart", "act as a media planner", "media planner mode", "advertising spend", "media brief", or needs expertise in strategic media planning, channel selection, and budget optimization across paid media. Part of the AlterLab FC Skills collection (Public Relations & Adver...

This skill should be used when the user asks about "pitch deck", "client pitch", "agency pitch", "presentation structure", "credentials deck", "competition entry", "pitch presentation", "new business pitch", "act as a pitch builder", "pitch builder mode", "pitch strategy", "presentation design", "agency credentials", or needs expertise in building persuasive pitch decks, agency credentials, and competition entries. Part of the AlterLab FC Skills collection (Public Relations & Advertising depa...

This skill should be used when the user asks about "press release", "media kit", "crisis communication", "PR writing", "public relations writing", "corporate communications", "media advisory", "speech writing", "spokesperson brief", "act as a PR writer", "PR writer mode", "media relations", "crisis statement", "internal communications", or needs expertise in writing professional public relations materials across all corporate communication formats. Part of the AlterLab FC Skills collection (P...

This skill should be used when the user asks about "campaign report", "performance report", "KPI dashboard", "campaign evaluation", "Barcelona Principles", "post-campaign analysis", "metrics report", "ROI measurement", "media evaluation", "act as a report generator", "report generator mode", "campaign results", "advertising effectiveness", "analytics report", or needs expertise in building campaign performance reports, evaluation frameworks, and KPI dashboards. Part of the AlterLab FC Skills ...

Queries the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biomedical relationships across genes, drugs, diseases, phenotypes, pathways, and biological processes. Use when exploring drug-disease or gene-disease links, building disease-centric knowledge subgraphs, or sourcing relations for drug repurposing and precision-medicine analyses. Part of the AlterLab Academic Skills suite.

Query PubChem via the PUG-REST API and PubChemPy across 110M+ compounds, searching by name, CID, or SMILES and retrieving molecular properties, bioactivity, and similarity/substructure matches. Use when looking up a chemical compound, converting names/SMILES to CIDs, fetching physicochemical properties, or running cheminformatics structure searches. Part of the AlterLab Academic Skills suite.

Scales reinforcement learning with PufferLib — high-throughput parallel training (PuffeRL), vectorized environments, and native multi-agent systems achieving 2-10x speedups over standard implementations. Use when scaling RL to millions of steps per second, running vectorized or multi-agent setups, building custom PufferEnv tasks, or integrating game environments (Atari, Procgen, NetHack, PettingZoo). For standard single-agent algorithm implementations (PPO/SAC/DQN) or quick prototyping prefer...

Run differential gene expression analysis on bulk RNA-seq count matrices with PyDESeq2, the Python port of DESeq2 — size-factor normalization, dispersion estimation, Wald tests, FDR (Benjamini-Hochberg) correction, and volcano/MA plots. Use when identifying differentially expressed genes between conditions from raw bulk RNA-seq counts. Part of the AlterLab Academic Skills suite.

Reads, writes, and manipulates DICOM (Digital Imaging and Communications in Medicine) medical imaging files with the pydicom Python library. Use when reading/writing/modifying DICOM data, extracting pixel data from CT, MRI, X-ray, or ultrasound images, anonymizing DICOM files, working with DICOM metadata and tags, converting DICOM to other formats, handling compressed DICOM, or processing medical imaging datasets for PACS systems, radiology workflows, and healthcare imaging applications. Part...

Develops, tests, and deploys clinical machine learning models with the PyHealth healthcare AI toolkit. Use when working with electronic health records (EHR), clinical prediction tasks (mortality, readmission, drug recommendation), medical coding systems (ICD, NDC, ATC), physiological signals (EEG, ECG), healthcare datasets (MIMIC-III/IV, eICU, OMOP), or implementing deep learning models for healthcare (RETAIN, SafeDrug, Transformer, GNN). Part of the AlterLab Academic Skills suite.

Programs lab automation with PyLabRobot, a vendor-agnostic Python framework that unifies control across Hamilton, Tecan, Opentrons, plate readers, and pumps, with simulation support. Use when controlling multiple equipment types or needing unified cross-vendor programming for complex, multi-vendor liquid-handling workflows. For Opentrons-only protocols with the official API, alterlab-opentrons may be simpler. Part of the AlterLab Academic Skills suite.

Analyzes and manipulates materials with the pymatgen toolkit — crystal structures and molecules, phase diagrams and thermodynamic stability, electronic structure (band structures, DOS), surfaces and interfaces, and Materials Project database access. Use when working with crystal structures in materials science, converting between structure formats (CIF, POSCAR, XYZ), analyzing symmetry or space groups, computing phase diagrams, querying the Materials Project API, or handling VASP, Gaussian, o...

Bayesian modeling and probabilistic programming with PyMC — hierarchical models, MCMC (NUTS) sampling, variational inference, LOO/WAIC model comparison, and posterior predictive checks. Use when fitting Bayesian or hierarchical models, estimating posteriors and credible intervals, running probabilistic inference, or comparing models with LOO/WAIC. Part of the AlterLab Academic Skills suite.

Multi-objective optimization with pymoo — NSGA-II, NSGA-III, MOEA/D, Pareto-front computation, constraint handling, and standard benchmarks (ZDT, DTLZ). Use when solving multi-objective or constrained optimization problems, computing Pareto-optimal trade-offs, or tackling engineering design problems with competing objectives. Part of the AlterLab Academic Skills suite.

Build complete mass-spectrometry workflows with pyOpenMS — feature detection, peptide identification, protein quantification, and full LC-MS/MS pipelines across many MS file formats (mzML, mzXML) and algorithms. Use for comprehensive proteomics and MS data processing — for simple spectral comparison and metabolite identification use matchms. Part of the AlterLab Academic Skills suite.

Read and write genomic alignment and variant files in Python with pysam (htslib bindings) — SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences, plus region extraction and per-base coverage/pileup. Use when scripting NGS data-processing pipelines that parse, filter, index, or compute coverage over BAM/CRAM/VCF files. Part of the AlterLab Academic Skills suite.

Loads Therapeutics Data Commons (TDC, PyTDC) AI-ready drug-discovery datasets and benchmarks — ADME, toxicity, drug-target interaction (DTI), scaffold splits, and molecular oracles for therapeutic ML and pharmacological prediction. Use when fetching a standardized benchmark dataset, applying scaffold or cold-split evaluation, or sourcing labeled molecules for ADMET, toxicity, or DTI modeling. Sources data, splits, and oracles only — defer molecular featurization (ECFP/fingerprints), model tra...

Scalable deep-learning training with PyTorch Lightning — organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, build data pipelines and callbacks, log to W&B or TensorBoard, and run distributed training (DDP, FSDP, DeepSpeed). Use when structuring PyTorch training loops, scaling neural-network training across GPUs/TPUs, or adding checkpointing, logging, and distributed strategies. Part of the AlterLab Academic Skills suite.

Builds, transpiles, and runs quantum circuits with Qiskit, IBM's quantum computing framework, including Qiskit Runtime primitives (Sampler/Estimator), circuit transpilation, and error mitigation on IBM Quantum hardware. Use when targeting IBM Quantum backends, transpiling circuits, running Runtime sessions or batches, or applying resilience/error mitigation. For Google Quantum AI hardware and NISQ circuits prefer alterlab-cirq; for gradient-trained quantum ML and hybrid quantum-classical mode...

Comprehensive qualitative research methods assistant supporting thematic analysis (Braun & Clarke), grounded theory (Strauss & Corbin; Charmaz), interpretative phenomenological analysis (IPA), content analysis, narrative inquiry, ethnography, case study methodology (Yin), coding techniques (open/axial/selective), NVivo-style workflows with Python alternatives, trustworthiness criteria (Lincoln & Guba), reflexivity, and member checking. Use when designing or analyzing qualitative research — th...

Simulates open quantum systems with QuTiP, the Quantum Toolbox in Python, solving Lindblad master equations (mesolve), Monte Carlo trajectories (mcsolve), and unitary dynamics (sesolve). Use when studying master-equation or Lindblad dynamics, decoherence, dissipation, quantum optics, cavity QED, or open-system time evolution. NOT for circuit-based quantum computing or hardware execution — for IBM Quantum circuits prefer alterlab-qiskit, for Google Quantum AI or NISQ circuits prefer alterlab-c...

Provides the RDKit cheminformatics toolkit for low-level, fine-grained molecular primitives — SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure/SMARTS search, 2D/3D coordinate generation, similarity, and reaction handling. Use when custom sanitization, specialized fingerprint or descriptor algorithms, reaction enumeration, or conformer generation demand direct API control; for a high-level pandas-friendly wrapper over RDKit prefer alterlab-datamol, and for turning m...

Query the Reactome REST API for pathway analysis, over-representation/enrichment, gene-to-pathway mapping, disease pathways, molecular interactions, and expression analysis. Use when running pathway enrichment on a gene list, mapping genes to curated biological pathways, or exploring disease pathways for systems biology studies. Part of the AlterLab Academic Skills suite.

International research ethics and compliance assistant supporting IRB/ethics board applications, informed consent drafting, data management plans, Belmont Report principles, Declaration of Helsinki (2024), GDPR compliance for research, HIPAA considerations, vulnerable populations protocols, deception research, confidentiality and anonymity, research integrity (fabrication/falsification/plagiarism), conflict of interest disclosure, and dual-use research oversight. Use when preparing an IRB or ...

Writes competitive research grant proposals for NSF, NIH, DOE, DARPA, and Taiwan NSTC — applies agency-specific formatting and review criteria, prepares budgets, and drafts broader-impacts, significance statements, and innovation narratives that comply with submission requirements. Use when drafting or revising a grant proposal, aligning a proposal to a funding agency's review criteria, or preparing grant budgets and compliance sections. For Turkey's TÜBİTAK 1001/1002-A national proposals use...

This skill should be used when the user asks about "writing an abstract", "abstract format", "structured abstract", "IMRAD abstract", "conference abstract", "thesis abstract", "dissertation abstract", "abstract submission", "keyword selection", "research summary", "act as an abstract writer", "abstract writer mode", "executive summary", "abstract optimization", "abstract for publication", "paper abstract", "how to write an abstract", "abstract word limit", "abstract discoverability", "journal...

This skill should be used when the user asks about "academic writing", "scholarly writing", "journal article", "research paper writing", "IMRAD structure", "literature review writing", "thesis writing", "dissertation writing", "peer review response", "revision letter", "hedging language", "academic vocabulary", "cohesion devices", "argument structure", "paragraph structure", "topic sentences", "signposting", "academic tone", "act as an academic writer", "academic writer mode", "scholarly tone...

This skill should be used when the user asks about "citation styles", "APA format", "MLA format", "Chicago style", "Harvard referencing", "IEEE citation", "Vancouver style", "reference list", "bibliography", "in-text citations", "cite my sources", "act as a citation manager", "citation manager mode", "Zotero", "Mendeley", "EndNote", "reference management", "avoiding plagiarism", "paraphrasing", "citation ethics", "how to cite", "format my references", "DOI", "parenthetical citation", "footnot...

This skill should be used when the user asks about "content analysis", "coding scheme", "media content analysis", "quantitative content analysis", "qualitative content analysis", "discourse analysis", "framing analysis", "media representation", "intercoder reliability", "Krippendorff's alpha", "Cohen's kappa", "coding manual", "code book", "content coding", "act as a content analyst", "content analyst mode", "thematic coding", "manifest content", "latent content", "unit of analysis", "coding ...

This skill should be used when the user asks about "interview methodology", "semi-structured interview", "interview guide", "interview questions", "probing techniques", "interview transcription", "interview analysis", "narrative analysis", "phenomenological analysis", "IPA", "interpretive phenomenological analysis", "focus group", "focus group facilitation", "participant recruitment", "informed consent", "qualitative interviewing", "act as an interview analyst", "interview analyst mode", "int...

This skill should be used when the user asks about "literature review", "systematic review", "source evaluation", "annotated bibliography", "literature mapping", "research gap", "database searching", "Google Scholar", "JSTOR", "Scopus", "Web of Science", "act as a literature reviewer", "literature reviewer mode", "finding sources", "academic sources", "peer-reviewed articles", "citation management", "reference list", "literature search strategy", "inclusion criteria", "exclusion criteria", "P...

This skill should be used when the user asks about "research proposal", "grant application", "funding proposal", "grant writing", "research justification", "proposal writing", "act as a proposal writer", "proposal writer mode", "ethics application", "IRB application", "ethics committee", "research budget", "budget planning", "research timeline", "Gantt chart", "proposal defense", "dissertation proposal", "thesis proposal", "research design", "methodology section", "literature gap", "significa...

This skill should be used when the user asks about "qualitative coding", "thematic analysis", "grounded theory", "open coding", "axial coding", "selective coding", "codebook development", "NVivo", "ATLAS.ti", "Dedoose", "MAXQDA", "inter-coder reliability", "memo writing", "qualitative data analysis", "coding qualitative data", "act as a qualitative coder", "qualitative coder mode", "thematic coding", "Braun and Clarke", "inductive coding", "deductive coding", "code hierarchy", "theme developm...

This skill should be used when the user asks about "research design", "methodology selection", "qualitative research", "quantitative research", "mixed methods", "research question", "hypothesis formulation", "variable operationalization", "sampling strategy", "act as a research designer", "research designer mode", "research methodology", "validity", "reliability", "internal validity", "external validity", "experimental design", "quasi-experimental", "case study design", "grounded theory", "ph...

This skill should be used when the user asks about "statistics", "statistical analysis", "SPSS", "R statistics", "hypothesis testing", "t-test", "ANOVA", "chi-square", "regression analysis", "correlation", "p-value", "effect size", "confidence interval", "descriptive statistics", "inferential statistics", "data visualization", "act as a statistics guide", "statistics guide mode", "statistical significance", "research statistics", "quantitative analysis", "normal distribution", "sample size", ...

This skill should be used when the user asks about "survey design", "questionnaire construction", "Likert scale", "question wording", "response bias", "survey tool", "Google Forms", "Qualtrics", "SurveyMonkey", "Typeform", "pilot testing", "survey distribution", "act as a survey builder", "survey builder mode", "survey instrument", "closed-ended questions", "open-ended questions", "rating scale", "semantic differential", "survey flow", "skip logic", "branching logic", "response rate", "survey...

This skill should be used when the user asks about "thesis structure", "dissertation", "thesis writing", "chapter organization", "research proposal", "thesis outline", "defense preparation", "thesis defense", "committee management", "thesis timeline", "writing productivity", "argument architecture", "thesis introduction", "literature review structure", "methodology chapter", "findings chapter", "discussion chapter", "thesis conclusion", "act as a thesis architect", "thesis architect mode", "d...

Run the standard single-cell RNA-seq analysis pipeline with Scanpy on AnnData — QC filtering, normalization, dimensionality reduction (PCA, UMAP, t-SNE), Leiden/Louvain clustering, marker/differential expression, PAGA trajectories, and plotting. Use when analyzing scRNA-seq data through clustering, cell-type annotation, DE, or pseudotime workflows; for building or reading the .h5ad data structure itself (layers, obs/var, concatenation, backed mode) prefer alterlab-anndata instead, and for RNA...

Evaluates scholarly work with the ScholarEval framework, producing structured assessment across research-quality dimensions (problem formulation, methodology, analysis, and writing) with quantitative rubric scores and actionable feedback. Use when scoring or grading a paper, thesis, or research output against rubric-style criteria, or benchmarking publication readiness across revisions. For checklist-based narrative reviewer reports prefer alterlab-peer-review; for evidence/claim quality and ...

Creative research ideation and exploration for open-ended brainstorming, surfacing interdisciplinary connections, challenging assumptions, and identifying research gaps. Use when starting early-stage research planning with no specific observations yet — for open-ended brainstorming sessions, exploring cross-disciplinary connections, or finding gaps. For formulating testable hypotheses from observations or data use hypothesis-gen; for grading evidence or spotting design flaws use scientific-th...

Evaluate scientific claims and evidence quality using evidence grading frameworks (GRADE, Cochrane Risk of Bias), assessing experimental design validity and identifying biases, confounders, statistical pitfalls, and logical fallacies. Use when judging evidence quality, grading certainty of evidence, spotting design or causal-inference flaws, identifying biases or confounders, naming statistical fallacies, or teaching critical analysis. For writing a formal submittable peer review use alterlab...