Claude Skills by NVlabs

This skill should be used when the user asks about "image-to-video", "still to motion", "animate my image", "Higgsfield video", "Soul Cinema Preview", "Seedance 1.5 Pro", "AI video generation", "Sora 2", "Kling 2.6", "Kling 3.0", "Veo 3.1", "Wan 2.6", "MiniMax Hailuo 02", "Higgsfield Assist", "Soul Cast", "content scoring", "act as an image-to-video director", "image-to-video mode", "camera motion on stills", "dolly on image", "Soul ID video", "character consistency in video", "upscale video"...

This skill should be used when the user asks about "AI motion design", "Higgsfield effects", "AI VFX", "style transfer video", "Ghibli anime style", "watercolor animation", "draw to video", "sketch animation", "Soul Inpaint", "Kling Video Edit", "AI video transitions", "video effects layering", "motion pacing", "act as a motion designer", "motion designer mode", "AI video compositing", "Canvas workspace", "batch video generation", "video style consistency", "multi-shot sequencing", "social me...

This skill should be used when the user asks about "AI music", "Suno", "song creation", "music generation", "lyrics writing", "song structure", "verse chorus bridge", "genre prompting", "lo-fi", "cinematic music", "indie folk", "electronic music", "hip hop beat", "song extending", "stems separation", "music for social media", "act as a music producer", "music producer mode", "AI song", "custom lyrics", "song variations", "remix style", "music prompt", "MIDI export", "negative prompt", "sectio...

This skill should be used when the user asks about "soundtrack", "film scoring", "background music", "scene music", "mood music", "instrumental generation", "content scoring", "video music", "podcast music", "ambient music", "transition music", "stinger", "musical identity", "music licensing", "soundtrack library", "act as a soundtrack composer", "soundtrack composer mode", "score a scene", "music for video", "emotional music", "cinematic score", "Suno instrumental", "MIDI export for scoring"...

This skill should be used when the user asks about "AI talking head", "UGC builder", "Higgsfield Speak 2.0", "lipsync video", "Lipsync Studio", "selfie to video", "Kling Lipsync", "Kling Speak", "Sync.so", "Higgsfield Assist", "Soul Cast", "content scoring", "digital presenter", "AI spokesperson", "synthetic presenter", "talking avatar", "lip sync", "AI testimonial video", "act as a talking head creator", "talking head mode", "Veo 3 UGC", "photo to talking video", "AI voiceover video", "expre...

Query NCBI Gene via the E-utilities and Datasets APIs, searching by gene symbol or Gene ID and retrieving gene information (RefSeqs, GO terms, genomic locations, associated phenotypes) including batch lookups. Use when resolving gene symbols to IDs, annotating gene lists, or pulling functional and positional gene metadata for downstream analysis. Part of the AlterLab Academic Skills suite.

Machine learning on genomic interval data (BED files) with the geniml Python package — region embeddings (Region2Vec), joint region+metadata embeddings (BEDspace/StarSpace), single-cell ATAC-seq embeddings (scEmbed), consensus peak sets / universes (build-universe), tokenization, BEDshift randomization, and BBClient/BEDbase caching. Use when training or using region/cell embeddings, clustering scATAC-seq, building a tokenization universe from BED collections, or any ML/feature-learning task o...

Covers geospatial science across remote sensing, GIS, spatial analysis, and machine learning for earth observation — satellite imagery processing (Sentinel, Landsat, MODIS, SAR, hyperspectral), raster and DEM operations, spectral indices (NDVI/EVI/NDWI), spatial statistics, point cloud processing, network analysis, and cloud-native workflows (STAC, COG, Planetary Computer), with examples across Python, R, Julia, JavaScript, C++, Java, Go, and Rust. Use for remote sensing workflows, satellite/...

Reads, writes, and analyzes geospatial vector data with the GeoPandas Python library (shapefiles, GeoJSON, GeoPackage), with PostGIS support and integration with matplotlib, folium, and cartopy. Use for spatial analysis and geometric operations — buffer analysis, spatial joins and overlays between datasets, dissolving boundaries, clipping, calculating areas and distances, reprojecting coordinate systems, choropleth mapping, or converting between vector file formats. This is for tabular vector...

Run fast one-liner queries to 20+ bioinformatics databases from the gget CLI or Python — gene info (Ensembl), BLAST, AlphaFold structures, Enrichr enrichment, and more. Use for quick interactive lookups of genes, sequences, structures, or pathways — for batch processing or advanced BLAST use biopython, for multi-database Python workflows use bioservices. Part of the AlterLab Academic Skills suite.

Analyze and engineer protein glycosylation — scan sequences for N-glycosylation sequons (N-X-S/T), predict O-glycosylation hotspots, and reach curated glycoengineering tools (NetOGlyc, GlycoShield, GlycoWorkbench). Use when identifying or designing glycosylation sites, optimizing therapeutic-antibody or biologic glycoforms, or doing glycoprotein engineering and vaccine-design work. Part of the AlterLab Academic Skills suite.

Runs high-performance genomic interval analysis with gtars (databio), a Rust toolkit with Python bindings — the performance-critical backend for the geniml ML library. Use when computing overlaps/jaccard/coverage between BED region sets, indexing intervals with IGD, generating uniwig accumulation/coverage tracks, tokenizing genomic regions for ML, splitting single-cell fragments into pseudobulks, or computing GA4GH refget sequence digests. NOT for training region embeddings (use alterlab-geni...

Query the NHGRI-EBI GWAS Catalog REST API for SNP-trait associations, retrieving variants by rs ID, disease/trait, or gene along with p-values and summary statistics. Use when investigating genome-wide association study hits, mapping a SNP or rsID to traits, building polygenic risk scores, or doing genetic epidemiology lookups. Part of the AlterLab Academic Skills suite.

Queries the OFR (Office of Financial Research) Hedge Fund Monitor API for time series on hedge fund size, leverage, counterparties, liquidity, complexity, and risk management, including SEC Form PF aggregated statistics, CFTC Traders in Financial Futures, FICC Sponsored Repo volumes, and FRB SCOOS dealer financing terms (no API key or registration required). Use when working with hedge fund data, systemic risk monitoring, financial stability research, hedge fund leverage or leverage ratios, c...

Access the Human Metabolome Database (HMDB, 220K+ metabolites), searching by name, HMDB ID, or structure to retrieve chemical properties, biomarker data, NMR/MS reference spectra, and associated pathways. Use when identifying a human metabolite, looking up its biomarker or disease associations, matching NMR/MS spectra, or running metabolomics annotation. Part of the AlterLab Academic Skills suite.

Formulates structured, testable hypotheses from experimental observations using a scientific-method framework — derives predictions, proposes mechanisms, and designs experiments to test them, then renders a LaTeX report. Use when turning observations or data into falsifiable, mechanistic hypotheses, competing-explanation sets, testable predictions, or experimental designs. For a standalone systematic literature review or evidence synthesis (not a means to hypotheses) use alterlab-literature-r...

Query and download public cancer imaging data from the NCI Imaging Data Commons (IDC) using the idc-index Python package, filtering by metadata, visualizing in-browser, and checking licenses, with no authentication required. Use when obtaining large-scale radiology (CT, MR, PET) or digital pathology DICOM datasets for AI/ML training or cancer imaging research. Part of the AlterLab Academic Skills suite.

Prepares ISO 13485 certification documentation for medical device Quality Management Systems (QMS) — gap analysis of existing documentation, Quality Manuals, required procedures and work instructions, and Medical Device Files. Use for ISO 13485 QMS documentation, conducting a documentation gap analysis, drafting a Quality Manual or SOP/work instruction, assembling a Medical Device File, identifying missing documentation for medical device certification, or when medical device regulations, QMS...

Provide direct REST API access to KEGG (academic use only) for pathway analysis, gene-to-pathway and compound-to-pathway mapping, metabolic reactions, KEGG Orthology (KO), drug-drug interactions, and ID conversion. Use when querying KEGG pathways, mapping genes/compounds to metabolic maps, or running KEGG pathway enrichment via raw HTTP/REST; for protein-protein interaction networks prefer alterlab-string-db, for protein sequences and annotations prefer alterlab-uniprot, and for Python workfl...

Manage, annotate, and trace biological data with LaminDB, an open-source FAIR data framework that makes datasets queryable, versioned, and reproducible. Use when registering or querying biological datasets (scRNA-seq, spatial, flow cytometry), validating and curating data against ontologies (genes, cell types, diseases, tissues), tracking data lineage and computational workflows, building data lakehouses, or wiring integrations with Nextflow, Snakemake, W&B, or MLflow. Part of the AlterLab Ac...

Audits and repairs Markdown link health across a skills repo via a four-tier pipeline (config hardening, intra-repo file-ref fixes, external URL substitutions, residual exclusions) and enforces a Tier 3 substitution guardrail that prevents regressions of previously-passing links; designed for lychee-based GitHub Actions link checkers but generalizes to markdown-link-check and similar tools. Use when the request mentions link audit, dead links, link health, lychee, broken links, link checker, ...

Conducts comprehensive, systematic literature reviews across multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar), with PRISMA flow tracking, study screening (title/abstract and full-text), evidence-table extraction, and risk-of-bias assessment, producing professionally formatted markdown documents and PDFs with verified citations in multiple styles (APA, Nature, Vancouver). Use when running a systematic literature review, meta-analysis, research synthesis, or broad literatu...

Computes mass-spectral similarity and identifies compounds for metabolomics with matchms — comparing mass spectra, scoring similarity (cosine, modified cosine), and searching spectral libraries to annotate unknowns. Use when matching MS/MS spectra, identifying metabolites, or library searching; for full LC-MS/MS proteomics pipelines use pyopenms. Part of the AlterLab Academic Skills suite.

Writes Markdown documents and text-based Mermaid diagrams (flowcharts, sequence, class, ER, gantt, state, and more) with full style guides, 24 diagram-type references, and 9 document templates. Use when authoring a scientific document, report, analysis, or README, or when a diagram should be expressed as version-controllable Mermaid/Markdown text rather than a rendered image. For AI-rendered publication schematics use scientific-schematics instead. Part of the AlterLab Academic Skills suite.

Access the NIH Metabolomics Workbench via its REST API (4,200+ studies), querying metabolites, RefMet standardized nomenclature, MS/NMR data, m/z mass searches, and study metadata. Use when retrieving public metabolomics study data, standardizing metabolite names with RefMet, running m/z lookups, or doing biomarker discovery. Part of the AlterLab Academic Skills suite.

Mixed methods research design and integration strategies for combining qualitative and quantitative approaches. Use when planning convergent, explanatory sequential, exploratory sequential, embedded, transformative, or multiphase designs; when integrating diverse data sources through merging, connecting, or embedding; when constructing joint displays or meta-inferences; or when evaluating quality criteria specific to mixed methods research. Covers Creswell & Plano Clark frameworks, notation s...

Runs and analyzes molecular dynamics simulations with OpenMM and MDAnalysis — setting up protein and small-molecule systems, assigning force fields, running energy minimization and production MD, and analyzing trajectories (RMSD, RMSF, contact maps, free energy surfaces). Use when simulating protein or ligand dynamics, equilibrating a system, or computing trajectory metrics for structural biology, drug binding, or biophysics. Part of the AlterLab Academic Skills suite.

Featurizes molecules for machine learning with molfeat (100+ featurizers) — ECFP/MACCS/MAP4 fingerprints, RDKit and Mordred physicochemical descriptors, and pretrained embeddings (ChemBERTa, ChemGPT, GIN) exposed as scikit-learn transformers that convert SMILES into feature vectors. Use when turning molecules into ML-ready feature matrices for QSAR/QSPR or virtual screening, or benchmarking fingerprint against descriptor and embedding representations; for training models and MoleculeNet bench...

Creates, analyzes, and visualizes complex networks and graphs in Python with NetworkX. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks, or visualizing topologies — applicable to social, biological, transportation, citation, and any pairwise-relationship networks. This is classical graph analytics, not deep learning — for train...

Processes and analyzes physiological biosignals with the NeuroKit2 Python toolkit — ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements, or when computing heart rate variability (HRV), event-related potentials, complexity measures, autonomic nervous system assessment, or multi-modal physiological signal integration for psychophysiology research. Part of the A...

Analyze Neuropixels 1.0/2.0 extracellular electrophysiology with SpikeInterface — load SpikeGLX/Open Ephys recordings, preprocess and motion-correct, run Kilosort4 spike sorting, compute quality metrics, apply Allen/IBL curation, and do AI-assisted visual inspection. Use when working with neural recordings, spike sorting, or extracellular electrophysiology, or when the user mentions Neuropixels, SpikeGLX, Open Ephys, Kilosort, quality metrics, or unit curation. Part of the AlterLab Academic S...

This skill should be used when the user asks about "data journalism", "data visualization", "data storytelling", "FOIA request", "RTI request", "spreadsheet analysis", "chart design", "act as a data journalist", "data journalist mode", "infographic", "open data", "statistical analysis for journalism", "investigative data", "public records", "Datawrapper", "Flourish", "Tableau Public", "D3.js", "chart type selection", or needs expertise in finding, analyzing, and visualizing data for journalis...

This skill should be used when the user asks about "digital campaign", "social impact campaign", "digital activism", "civic tech", "awareness campaign", "advocacy campaign", "act as a digital campaign planner", "digital campaign mode", "hashtag campaign", "change.org petition", "awareness-to-action funnel", "online mobilization", "cause marketing", "social change campaign", "petition strategy", or needs expertise in designing and executing digital campaigns for social impact and civic engagem...

This skill should be used when the user asks about "digital ethics", "media ethics", "AI ethics", "platform governance", "misinformation", "disinformation analysis", "act as a digital ethics advisor", "digital ethics mode", "algorithmic bias", "data privacy", "content moderation", "ethical framework", "deepfake", "surveillance", "fact-checking tools", "verification workflow", "platform audit", "ethics stress test", "algorithmic accountability", "informed consent", "digital rights", "tech regu...

This skill should be used when the user asks about "media theory", "critical theory", "academic writing", "Foucault", "Habermas", "McLuhan", "Baudrillard", "Stuart Hall", "act as a media theory companion", "media theory mode", "theoretical framework", "literature review", "discourse analysis", "semiotics", "cultural studies", "political economy", or needs expertise in applying media and communication theory to academic writing and critical analysis. Part of the AlterLab FC Skills collection (...

This skill should be used when the user asks about "multimedia storytelling", "interactive story", "longform web feature", "cross-platform narrative", "scrollytelling", "immersive journalism", "act as a multimedia story builder", "multimedia story mode", "web documentary", "transmedia narrative", "visual storytelling", "digital longform", "parallax story", "Shorthand", "Scrollama", "StoryMap", "interactive feature", "Juxtapose", or needs expertise in designing and producing cross-platform nar...

This skill should be used when the user asks about "newsletter", "email newsletter", "email content strategy", "subject lines", "newsletter structure", "email marketing", "act as a newsletter designer", "newsletter mode", "Substack", "Mailchimp", "CTA optimization", "open rate", "email design", "subscriber growth", "Beehiiv", or needs expertise in planning, writing, and optimizing email newsletters. Part of the AlterLab FC Skills collection (New Media & Communication department).

This skill should be used when the user asks about "podcast production", "episode planning", "podcast script", "show notes", "audio editing", "podcast launch", "RSS feed", "act as a podcast producer", "podcast producer mode", "interview preparation", "podcast format", "podcast distribution", "recording setup", "podcast monetization", "podcast microphone", "DAW workflow", "audio mastering", "podcast hosting platform", "episode outline", "podcast trailer", "podcast editorial calendar", or needs...

This skill should be used when the user asks about "digital portfolio", "portfolio website", "project description", "case study", "portfolio curation", "creative portfolio", "act as a portfolio curator", "portfolio curator mode", "portfolio review", "professional presentation", "portfolio architecture", "work samples", "portfolio bio", or needs expertise in building, structuring, and writing professional digital portfolios. Part of the AlterLab FC Skills collection (New Media & Communication ...

This skill should be used when the user asks about "social media analytics", "platform analytics", "audience insights", "engagement rate", "social media strategy report", "competitive benchmarking", "act as a social media analyst", "social analyst mode", "social media metrics", "content performance", "follower growth", "social media audit", "social listening", or needs expertise in analyzing social media data and translating it into actionable strategy reports. Part of the AlterLab FC Skills ...

This skill should be used when the user asks about "web content strategy", "SEO writing", "UX writing", "information architecture", "content architecture", "website structure", "act as a web content strategist", "web strategist mode", "site map", "content audit", "microcopy", "meta descriptions", "content hierarchy", "content governance", or needs expertise in planning, structuring, and writing content for websites and digital platforms. Part of the AlterLab FC Skills collection (New Media & ...

Manages microscopy image data on an OMERO server via the OMERO Python API (BlitzGateway) — access images, retrieve datasets, read pixel data, manage ROIs and annotations, and batch-process. Use when connecting to an OMERO server, pulling microscopy images or datasets, analyzing pixels, managing ROIs/annotations, or running high-content screening and microscopy workflows. Part of the AlterLab Academic Skills suite.

Guidance for open science practices — preregistration (OSF Registries, AsPredicted, PROSPERO, ClinicalTrials.gov), open data and FAIR principles, repository choice (Zenodo, Dryad, Figshare), open access routes (Green/Gold/Diamond), Creative Commons licensing, reproducible computational workflows (Docker, Binder, Code Ocean), registered reports, open peer review, and TOP Guidelines. Use when preregistering a study, writing the FAIR data-sharing and repository section of a grant data management...

Query and analyze scholarly literature using the OpenAlex API across 240M+ works, retrieving papers, authors, institutions, citations, and open access status. Use when searching academic papers, tracking citations, finding works by author or institution, analyzing research trends, discovering open access publications, or running bibliometric analysis. Part of the AlterLab Academic Skills suite.

Query the Open Targets Platform GraphQL API for target-disease associations, tractability and safety data, genetics/omics evidence, and known drugs. Use when identifying or prioritizing therapeutic drug targets, assessing target druggability/safety, or gathering target-disease evidence for drug discovery. Part of the AlterLab Academic Skills suite.

Writes liquid-handling protocols for Opentrons OT-2 and Flex robots using the official Opentrons Protocol API v2, with full access to v2 features for production-grade, officially compatible protocols. Use when authoring or running protocols specifically for Opentrons hardware. For multi-vendor automation or broader equipment control use pylabrobot instead. Part of the AlterLab Academic Skills suite.

Access the RCSB Protein Data Bank (PDB) for EXPERIMENTALLY determined 3D structures (X-ray, cryo-EM, NMR) of proteins and nucleic acids — searching by text, sequence, or structure similarity and downloading coordinates in PDB/mmCIF format with metadata. Use when retrieving a structure by PDB ID, running sequence or structure similarity searches, or obtaining experimental coordinates for structural biology and drug discovery; for AI-PREDICTED structures of proteins lacking experimental data pr...

Writes structured, checklist-based manuscript and grant peer reviews — assesses methodology, statistical validity, reporting-standards compliance (CONSORT/STROBE/PRISMA), and gives constructive feedback. Use when writing a formal reviewer report, responding to a journal/grant review invitation, or revising a manuscript against reviewer criteria. For evaluating claims/evidence quality prefer alterlab-scientific-thinking; for a multi-reviewer mock-panel verdict use alterlab-paper-reviewer; for ...

Trains and differentiates quantum circuits with PennyLane, a hardware-agnostic quantum machine-learning framework with automatic differentiation and PyTorch/JAX/TensorFlow integration. Use when training quantum circuits via gradients (parameter-shift, backprop, adjoint), building hybrid quantum-classical models or quantum neural networks, or running differentiable variational algorithms (VQE, QAOA). For IBM Quantum hardware and Qiskit Runtime prefer alterlab-qiskit; for Google Quantum AI or N...

Build phylogenetic trees end-to-end from raw sequences — MAFFT multiple sequence alignment, optional TrimAl trimming, IQ-TREE 2 maximum-likelihood inference with model selection and bootstraps, FastTree for large datasets, then visualize with ETE3 or FigTree. Use when reconstructing trees from sequences (FASTA) for evolutionary analysis, microbial genomics, viral phylodynamics, protein-family studies, or molecular-clock dating. For manipulating/comparing an EXISTING Newick tree (prune, root, ...