Claude Skills by stanfish06

A Just-In-Time (JIT) compiler for Python that translates a subset of Python and NumPy code into fast machine code. Developed by Anaconda, Inc. Highly effective for accelerating loops, custom mathematical functions, and complex numerical algorithms. Use for @njit, @vectorize, prange, cuda.jit, numba.typed, JIT compilation, parallel loops, GPU acceleration with CUDA, Monte Carlo simulations, numerical algorithms, and high-performance Python computing.

Expert-thinking profile for Number Theorist (theoretical / computational pure and arithmetic number theory): Reasons from primes, congruences, L-functions, and the Langlands web; chooses algebraic, analytic, and sieve methods; validates with SageMath/PARI/LMFDB while treating PARI stack overflows, conditional-proof leaks, and CRT moduli errors as first-class failure modes.

Expert-thinking profile for Numerical Analyst (theoretical / computational scientific computing): Reasons from well-posedness, discretization, conditioning, and stability; verifies codes with MMS and convergence studies; treats cancellation, stiffness, and solver tolerance floors as first-class failure modes.

Personalised nutrition report from consumer genetic data (23andMe, AncestryDNA, VCF) — interrogates nutritionally-relevant

Expert-thinking profile for Nutrition Scientist (nutritional epidemiology / controlled feeding trials / dietary assessment & biomarker validation / survey analysis (NHANES, DLW)): Reasons from intake measurement error, energy balance, and causal triangulation through doubly-labeled-water validation, NCI usual-intake models, DRI (EAR/RDA/UL) frameworks, crossover feeding trials, and Mendelian randomization while treating dietary underreporting, reverse causation (sick-quitter), unadjusted...

Write code that calls the installed nvMolKit Python API for GPU-accelerated, batched RDKit-style operations - Morgan fingerprints, Tanimoto/cosine similarity, ETKDG conformer embedding, MMFF/UFF optimization, TFD, conformer RMSD, Butina clustering, and substructure search. Use when the user is importing `nvmolkit.*`, debugging an `nvmolkit` call, choosing between nvMolKit and RDKit for a batched cheminformatics workflow, or wiring nvMolKit results into a torch/numpy pipeline. Out of scope: bu...

Instruments code so production behavior is visible and diagnosable. Use when adding logging, metrics, tracing, or alerting. Use when shipping any feature that runs in production and you need evidence it works. Use when production issues are reported but you can't tell what happened from the available data.

Expert-thinking profile for Observational Astronomer (multi-wavelength observational / calibration & photometry / time-domain & transients / Bayesian inference / multi- messenger): Reasons from radiative transfer, the distance ladder, and statistical- versus-systematic error budgets through HST/JWST/ALMA pipelines, Gaia DR3 astrometry, archives (SIMBAD, MAST, HEASARC), and emcee/dynesty inference while treating the look- elsewhere effect, PSF and flat-field artifacts, photo-z catastrophic...

Interact with Obsidian vaults using the Obsidian CLI to read, create, search, and manage notes, tasks, properties, and more. Also supports plugin and theme development with commands to reload plugins, run JavaScript, capture errors, take screenshots, and inspect the DOM. Use when the user asks to interact with their Obsidian vault, manage notes, search vault content, perform vault operations from the command line, or develop and debug Obsidian plugins and themes.

Expert-thinking profile for Occupational Health Scientist (industrial hygiene / exposure assessment / occupational epidemiology / sampling and OELs (PEL, TLV, REL) / hierarchy of controls): Reasons from exposure route and receptor, dose-response, and the hierarchy of controls through SEG-based personal sampling, NIOSH/OSHA analytical methods, AIHA Bayesian exceedance statistics, and SMR cohort analysis, while treating healthy worker effect, below-LOD censoring, fraction-size and OEL mismatch,...

Expert-thinking profile for Oceanographer (seagoing / interdisciplinary / water-mass & tracer analysis / air-sea flux & biogeochemistry / TEOS-10): Reasons from basin-scale budgets, three-dimensional circulation, and forcing-transport-transformation coupling through θ–S and OMP water-mass analysis, transient-tracer ventilation ages (CFC/SF₆/¹⁴C), GO-SHIP/Argo/SOCAT networks, and TEOS-10 thermodynamics while treating mesoscale aliasing of single sections, mixed...

Use this skill to build academic-style .docx output: journal / conference / thesis chapters carrying formal citation style (APA, Chicago, IEEE, MLA), numbered equations, figure & table cross-references, footnotes/endnotes, bibliography, or multi-column journal layout. Trigger on: 'research paper', 'journal paper', 'conference paper', 'manuscript', 'thesis', 'APA', 'MLA', 'Chicago', 'IEEE two-column', 'bibliography', 'hanging indent', 'citation style', 'abstract + keywords', 'equation numberin...

Use this skill to build a multi-element Excel dashboard — Dashboard sheet on open, multiple formula-driven KPI cards, multiple charts, sparklines, and conditional formatting — from CSV or tabular input. Trigger on: 'dashboard', 'KPI dashboard', 'analytics dashboard', 'executive dashboard', 'metrics dashboard', 'CSV to dashboard', 'data visualization'. Output is a single .xlsx. Scene-layer on officecli-xlsx: inherits every xlsx hard rule. DO NOT invoke for: a single budget tracker / one-sheet ...

Use this skill any time a .docx file is involved -- as input, output, or both. This includes: creating Word documents, reports, letters, memos, or proposals; reading, parsing, or extracting text from any .docx file; editing, modifying, or updating existing documents; working with templates, tracked changes, comments, headers/footers, or tables of contents. Trigger whenever the user mentions 'Word doc', 'document', 'report', 'letter', 'memo', or references a .docx filename.

Use this skill when the user wants to build a financial model — 3-statement model, DCF valuation, LBO, SaaS unit economics, sensitivity / scenario analysis, debt schedule, or fundraising projections — in Excel. Trigger on: 'financial model', '3-statement model', 'P&L + BS + CF', 'DCF', 'WACC', 'NPV', 'terminal value', 'LBO', 'debt schedule', 'cash sweep', 'MOIC', 'IRR / XIRR', 'sensitivity table', 'scenario analysis', 'ARR model', 'unit economics', 'CAC / LTV', 'cap table forecast'. Output is...

Use this skill when the user is building a fundraising / investor pitch deck — seed, Series A / B / C, convertible note, SAFE round, strategic raise. Trigger on: 'pitch deck', 'investor deck', 'Series A deck', 'Series B deck', 'Series C deck', 'fundraising deck', 'seed pitch', 'VC deck', 'raising capital', 'term sheet presentation'. Output is a single .pptx. This skill is a scene layer on top of officecli-pptx — inherits every pptx v2 rule (visual floor, grid, palettes, connector canon, Deliv...

Use this skill any time a .pptx file is involved -- as input, output, or both. This includes: creating slide decks, pitch decks, or presentations; reading, parsing, or extracting text from any .pptx file; editing, modifying, or updating existing presentations; combining or splitting slide files; working with templates, layouts, speaker notes, or comments. Trigger whenever the user mentions 'deck', 'slides', 'presentation', 'pitch', or references a .pptx filename.

Use this skill to create fillable Word forms (.docx) with real Content Controls (SDT) + legacy FormField checkboxes + MERGEFIELD mail-merge placeholders + document protection. Trigger on: 'fillable form', 'form fields', 'content controls', 'SDT', 'word form', 'fill in', 'only editable fields', 'protect document', 'onboarding form', 'HR intake', 'survey template', 'contract / SOW template', 'mail-merge template', 'compliance checklist', 'medical intake questionnaire'. Output is a single .docx ...

Use this skill any time a .xlsx file is involved -- as input, output, or both. This includes: creating spreadsheets, financial models, dashboards, or trackers; reading, parsing, or extracting data from any .xlsx file; editing, modifying, or updating existing workbooks; working with formulas, charts, pivot tables, or templates; importing CSV/TSV data into Excel format. Trigger whenever the user mentions 'spreadsheet', 'workbook', 'Excel', 'financial model', 'tracker', 'dashboard', or reference...

Create, analyze, proofread, and modify Office documents (.docx, .xlsx, .pptx) using the officecli CLI tool. Use when the user wants to create, inspect, check formatting, find issues, add charts, or modify Office documents.

Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.

Coordinate the end-to-end CAD/source-asset to SimReady workflow. Use for broad requests such as CAD to SimReady, source asset to simulation-ready USD, or prop packaging that require conversion, material/physics assignment, SimReady conformance, validation, and optional package creation; deploy or verify Content Agents services first when property assignment is enabled; route single-stage work through nested references.

Use as the top-level router for Omniverse Realtime Viewer USD app requests and focused viewer reference documents.

Top-level workflow skill for USD performance diagnosis and optimization. Use for slow loading, high memory, low FPS, or 'optimize my scene' requests; delegates auth/runtime setup to Phase 0 owners.

Route alerts, run on-call rotations, and drive incidents in Grafana IRM / OnCall — integrations (Alertmanager / Grafana Alerting / generic webhook / PagerDuty), Jinja2 routing + grouping templates, escalation chains (wait → notify schedule → notify team → webhook → auto-resolve), schedules (web + iCal + Terraform `grafana_oncall_schedule`), Slack chatops with Acknowledge/Resolve/Silence, and the P1-P4 incident lifecycle. Use when wiring Alertmanager to OnCall, deciding which team gets paged, ...

Expert-thinking profile for Oncologist (clinical / multidisciplinary oncology): Stages with AJCC TNM and molecular prognostic groups, selects biomarker-matched therapy from NCCN guidelines, assesses response with RECIST 1.1/iRECIST, and interprets trial endpoints with calibrated clinical judgment.

Self-hosted, open-source alternative to Google NotebookLM for AI-powered research and document analysis. Use when organizing research materials into notebooks, ingesting diverse content sources (PDFs, videos, audio, web pages, Office documents), generating AI-powered notes and summaries, creating multi-speaker podcasts from research, chatting with documents using context-aware AI, searching across materials with full-text and vector search, or running custom content transformations. Supports ...

Guide Codex through instrumenting or extending repositories with OpenAI Ads Measurement Pixel and optional Conversions API (CAPI). Use when adding Ads conversion tracking, browser pixel events, server-side conversion events, event_id deduplication, CAPI secret placeholders, incremental conversion coverage, or validating Ads conversion setup. Applies to local repositories and PR review contexts; prioritize safe, reviewable diffs and never place API keys or secrets in source code or client bund...

Use when Codex is asked to build, run, test, debug, or configure an OpenAI-backed or provider-unspecified AI app, UI, script, CLI, generator, or tool, especially requests phrased only as "using AI" or generators driven by forms/user input; also use for OPENAI_API_KEY or sk-proj setup. Treat this as the credential gate: inspect safely, ask reuse-vs-new before API work, and never expose plaintext.

Use this skill for OpenFold2, NVIDIA's BioNeMo NIM microservice for monomer protein structure prediction. Invoke whenever the user mentions OpenFold2, AlphaFold2-like monomer folding, protein sequence-to-structure prediction, A3M MSAs, mmCIF templates, hosted NVIDIA API calls, or local Docker deployment.

Use this skill for OpenFold3, NVIDIA's BioNeMo NIM microservice for biomolecular structure prediction. Invoke whenever the user mentions OpenFold3 or needs protein, protein-ligand, protein-DNA/RNA, or multi-chain complex prediction with the hosted NVIDIA API or local Docker NIM. Covers endpoint choice, auth, request payloads, output artifacts, confidence scores, and local container setup.

Give coding agents the actual source code of any dependency. `opensrc path <pkg>` shallow-clones a package at the right version and caches it locally, printing a path you can grep/read — for npm, PyPI, crates.io, and GitHub/GitLab/Bitbucket repos. Use when you need to read a library's real implementation (not just docs) to understand internals, verify behavior, find an undocumented API, debug a dependency, or check what changed between versions. Compose with ripgrep/cat/find.

Instrument any app with OpenTelemetry and ship metrics / logs / traces to Grafana Cloud or self-hosted Mimir / Loki / Tempo / Pyroscope. Covers SDK auto-instrumentation for Go, Java (Grafana JVM agent), Python (`opentelemetry-instrument`), Node.js, .NET (`Grafana.OpenTelemetry`), Beyla eBPF for zero-code; Grafana Cloud OTLP gateway + Basic-auth (instanceID + API key, base64); env-var config (`OTEL_EXPORTER_OTLP_*`, `OTEL_RESOURCE_ATTRIBUTES`); Alloy / OTel-Collector pipelines; Kubernetes Oper...

Official Opentrons Protocol API for OT-2 and Flex robots. Use when writing protocols specifically for Opentrons hardware with full access to Protocol API v2 features. Best for production Opentrons protocols, official API compatibility. For multi-vendor automation or broader equipment control use pylabrobot.

Expert-thinking profile for Operations Researcher (optimization modeling / stochastic & robust programming / discrete-event simulation / VRP & scheduling / production solve ops (ERP/WMS/TMS)): Reasons from decision structure, integrality and convexity, and explicit uncertainty through LP/MIP solvers (Gurobi, CPLEX, OR-Tools CP-SAT), stochastic and Wasserstein-distributionally-robust formulations, and DES (SimPy, AnyLogic) benchmarked on Solomon/MIPLIB instances, while treating unit inconsiste...

Expert-thinking profile for Ophthalmologist (clinical / retina, glaucoma & vision trials): Reasons from structure–function pairing (OCT RNFL/CST, HVF MD/VFI, ETDRS BCVA); manages glaucoma IOP targets and anti-VEGF treat-and-extend while treating field learning effect, OCT floor effect, and 15-letter regulatory margins as first- class failure modes.

Expert-thinking profile for Optical Physicist (ultracold AMO / laser cooling & trapping / optical lattices & tweezers / precision clocks / quantum simulation): Reasons from quantized atom-field coupling, recoil and trap energy scales (Γ, E_rec, U/J, κ), and coupled instability-versus-systematic budgets through optical Bloch equations, in-situ lattice-depth and Rabi calibration, QuTiP and ARC modeling, and Allan-deviation and clock systematic tables, while treating...

Expert-thinking profile for Optimization Scientist (computational / mathematical optimization): Reasons from convexity class, KKT/complementarity, and LP/MIP relaxation gaps through interior-point and branch-and-cut (Gurobi, CPLEX, MOSEK, Ipopt) while treating loose big-M, IntegralityTol cheaters, IIS-hidden infeasibility, nonconvex KKT-as-global, and MIPGap-at-TimeLimit-as-optimal as first-class failure modes.

Expert-thinking profile for Optoelectronics Engineer (device R&D / characterization / PIC & semiconductor photonics): Reasons from photon–electron conversion, ABC recombination, and IQE/EQE/WPE budgets; runs LIV/pulsed laser, EMVA 1288, and responsivity metrology; designs with Lumerical/Sentaurus/COMSOL TCAD and foundry PDKs while treating efficiency droop, thermal rollover, LIV kinks, and calibration geometry as first-class failure...

Hyperparameter optimization (HPO) for ML models using Optuna. Use when tuning learning rate, regularization, architecture choices, or any numeric/categorical hyperparameter. Covers create_study/optimize quickstart, sampler selection (TPE, CMA-ES, grid, random, NSGA-II), pruners for early stopping (MedianPruner, HyperbandPruner), distributed search with RDBStorage, integrations with PyTorch Lightning and scikit-learn, and built-in visualization.

Expert-thinking profile for Oral Biologist (clinical / research): Reasons from biofilm dysbiosis, demineralization-remineralization balance, and host-mineral-microbe partitioning through pH-cycling and ligature models, 16S/shotgun metagenomics (DADA2/QIIME2, HOMD), micro-CT, and ICDAS/AAP-EFP staging, while treating saliva- ignored caries models, low-biomass contamination...

Expert-thinking profile for Organic Chemist (wet-lab / synthetic and methods organic chemistry): Reasons from retrosynthesis, protecting-group strategy, and stereoelectronics; executes air-sensitive chemistry, flash/LC-MS purification, and NMR/IR/MS proof; mines SciFinder/Reaxys and reports ACS-grade experimentals with E-factor/PMI and pyrophoric safety discipline.

Expert-thinking profile for Organoid Biologist (wet-lab / stem-cell and 3D epithelial culture): Reasons from niche signaling, Matrigel scaffolds, and culture geometry; engineers Wnt/R-spondin expansion, ALI differentiation, and PDO biobanks while treating matrix lot effects and donor-level pseudoreplication as first-class failure modes.

Expert-thinking profile for Organometallic Chemist (air-sensitive synthesis / homogeneous catalysis / multinuclear NMR & SCXRD / mechanistic kinetics): Reasons from electron counting, oxidation states, and elementary catalytic steps through Schlenk/glovebox technique, multinuclear NMR and νCO IR, SCXRD with checkCIF, and TON/TOF kinetics while treating air oxidation to oxo/hydroxo species, paramagnetic line-broadening, and trace or colloidal-metal leaching as...

Expert-thinking profile for Ornithologist (field / observational / banding / bioacoustics / population monitoring): Reasons from detectability-limited surveys through BBS/MAPS protocols, distance sampling and unmarked occupancy, eBird/auk hygiene, BirdNET–Raven validation, BBL permitting, Pyle molt scoring, MOTUS/FlightR connectivity, and AviList/Clements taxonomy while treating roadside bias, space-for- time pseudo-replicates, and...

Expert-thinking profile for Orthopedic Biomechanist (clinical / research): Reasons from joint kinematics, forces, moments, and tissue stress through optical motion capture with force plates, inverse dynamics with de Leva segment parameters, OpenSim/AnyBody and FEBio/Abaqus models, and ISO 14243 wear testing while treating skin motion artifact, cardan gimbal lock, unnormalized moments, and...

Use for authorized OT/ICS security assessment covering Purdue model zoning, PLC/SCADA exposure, industrial protocol discovery, and safe passive-first evaluation.

Prepare macOS packaging and notarization workflows. Use when archiving apps, validating bundles, or explaining distribution-only failures.

Operator toolkit for nf-core/pacsomatic matched tumor-normal workflows from BAM inputs. Use this skill when the user needs to validate run inputs, generate pacsomatic-compliant samplesheets, prepare reproducible Nextflow launch artifacts, run locally or submit to schedulers (LSF/Slurm/PBS/SGE), and triage execution failures. Triggers on requests to run pacsomatic, prepare launch commands/scripts, perform dry-run checks, or troubleshoot pipeline startup and scheduler submission errors.

Expert-thinking profile for Paleobotanist (field / laboratory paleobotany & palynology): Reasons from phytotaphonomy and preservation mode (compression, permineralization, palynomorphs); prepares coal-ball peels and cuticle/maceral workflows; applies LMA/CLAMP/DiLP and stomatal/Franks CO₂ proxies; uses PBDB, Neotoma, IFPNI/PFNR, and ICN fossil-taxon nomenclature while treating transport bias...