stanfish06

@stanfish06 source repo

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Information Retrieval Scientist · stanfish06 bundle
Expert-thinking profile for Information Retrieval Scientist (ranking / evaluation (TREC, trec_eval) / BM25 + neural retrieval / search-log privacy): Reasons from the Probability Ranking Principle, ranked-list utility, and candidate-generation-versus- re-ranking separation through BM25 baselines, dense and cross-encoder retrieval, and TREC-style qrels evaluated with trec_eval and nDCG, while treating position-biased clicks, unjudged-as-nonrelevant pools, analyzer...

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Reaction Engineering Specialist · stanfish06 bundle
Expert-thinking profile for Reaction Engineering Specialist (kinetics / reactor design / catalysis / RTD & calorimetry / thermal-hazard & scale-up): Reasons from rate laws, stoichiometry, residence-time distributions, and coupled heat-rate balances through LHHW and Michaelis-Menten kinetics, Thiele/effectiveness and Weisz-Prater diffusion criteria, tracer RTD models, and RC1/ARC calorimetry while treating thermal runaway, hot spots, catalyst deactivation...

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Regenerative Medicine Scientist · stanfish06 bundle
Expert-thinking profile for Regenerative Medicine Scientist (wet-lab / translational CGT, tissue engineering & ATMP CMC): Reasons from potency assurance, 361 vs 351/ATMP pathways, USP <1043> ancillary tiers, G-Rex/closed CAR-T manufacture, MSC matrix potency, and ISO 10993/dECM scaffolds while treating comparability-without-bioassay and CFU-F-as-potency as first-class failure modes.

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Computer Architecture Researcher · stanfish06 bundle
Expert-thinking profile for Computer Architecture Researcher (computational / simulation / architecture evaluation): Reasons from ISA semantics, AMAT/CPI, MESI coherence, and branch prediction through gem5/SPEC/MLPerf evaluation, Amdahl and roofline discipline, TPU/GPU dataflow accelerators, DVFS/EDP, and Spectre/Meltdown mitigation overhead at ISCA/MICRO/HPCA rigor.

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Configuring Opentelemetry Dotnet · stanfish06
Configure OpenTelemetry distributed tracing, metrics, and logging in ASP.NET Core using the .NET OpenTelemetry SDK. Use when adding observability, setting up OTLP exporters, creating custom metrics/spans, or troubleshooting distributed trace correlation.

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Energy Storage Battery Scientist · stanfish06 bundle
Expert-thinking profile for Energy Storage / Battery Scientist (electrochemistry / cell build & testing / materials characterization / failure analysis / standards (IEC 62660, UN 38.3, USABC)): Reasons from interfacial thermodynamics, ion transport, SEI/CEI dynamics, and cell engineering constraints (N/P and E/S ratio, mass loading) through galvanostatic cycling, dQ/dV, GITT and EIS/DRT, operando XRD, and PyBaMM/Newman models, while treating Li plating, lithium-inventory loss, transition- metal crossover, and...

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Precision Agriculture Specialist · stanfish06 bundle
Expert-thinking profile for Precision Agriculture Specialist (site-specific crop management / VRT prescriptions / remote & proximal sensing / RTK-GNSS & ISOBUS / yield-map QA): Reasons from management-zone heterogeneity, the spatial 4R (right input, rate, place, time), and per-zone margin maps through SSURGO/ECa zone delineation, NDVI/NDRE indices, RTK-GNSS georeferencing, and ISOBUS Task Controller as-applied logs while treating planned-versus-applied divergence, NDVI saturation...

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Precision Engineering Specialist · stanfish06 bundle
Expert-thinking profile for Precision Engineering Specialist (GD&T / CMM metrology / ultra-precision manufacturing): Reasons from ASME Y14.5 GD&T, GUM uncertainty, and micrometer error budgets through CMM programming (ISO 10360), volumetric compensation, UPDT/STS diamond turning, and ISO 14253 decision rules while treating datum mis- simulation, MMC bonus omission, and CMM program drift as first-class failure modes.

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Programming Languages Researcher · stanfish06 bundle
Expert-thinking profile for Programming Languages Researcher (formal semantics / type systems / mechanized metatheory (Coq/Ott) / verification / POPL-PLDI): Reasons from operational semantics, type-theoretic invariants, and soundness as preservation-plus- progress through Ott/LN-defined calculi, Coq/Isabelle/Agda mechanization, Hindley- Milner inference, and abstract-interpretation Galois connections while treating stuck terms, blame escaping onto well-typed pure terms...

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Brain Computer Interface Engineer · stanfish06 bundle
Expert-thinking profile for Brain–Computer Interface Engineer (EEG/ECoG/intracortical acquisition, real-time signal processing, and clinical BCI systems): Reasons from modality–paradigm fit (EEG, ECoG, Utah arrays), CSP/Riemannian decoding (pyriemann, MOABB), BCI2000/OpenBCI pipelines, and charge-density stimulation safety; validates within- vs cross-session claims and treats muscle ICA, impedance drift, and IDE/IRB gates as first-class failure modes.

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Observability And Instrumentation · stanfish06
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.

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Reinforcement Learning Researcher · stanfish06 bundle
Expert-thinking profile for Reinforcement Learning Researcher (computational / deep RL & sim-to-real): Reasons from MDP/POMDP and Bellman operators through DQN/PPO/SAC/TD3, MuJoCo/Atari/Procgen/Brax benchmarks, offline RL (CQL/IQL), reward-hacking diagnostics, Gymnasium/CleanRL/SB3 stacks, and NeurIPS/ICML/CoRL seed-stratified evaluation with bootstrap CIs.

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Reports Pdfs And Slide Automation · stanfish06 bundle
Lay out and export data-rich reports and documents. Use when the user needs report structure, figure packaging, PDFs, PowerPoint or Google Slides automation, or programmatic insertion of visualizations, UML-like diagrams, or architecture diagrams into documents.

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Building Dbt Semantic Layer · stanfish06 bundle
Use when creating or modifying dbt Semantic Layer components — semantic models, metrics, dimensions, entities, measures, or time spines. Covers MetricFlow configuration, metric types (simple, derived, cumulative, ratio, conversion), and validation for both latest and legacy YAML specs.

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Canvas2d Data Visualization · stanfish06 bundle
Render data visualizations with Canvas2D. Use when the visualization needs high mark counts, fast redraws, immediate-mode rendering, custom hit testing, or a hybrid Canvas plus SVG or HTML architecture.

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Database Systems Researcher · stanfish06 bundle
Expert-thinking profile for Database Systems Researcher (systems prototyping / storage engines & concurrency control / query optimization / workload benchmarking (TPC, YCSB, JOB)): Reasons from storage hierarchy, concurrency semantics, query-optimization theory, and declared workload models through TPC-C/H, YCSB, and JOB benchmarks, Jepsen/Elle correctness checkers, and perf/blktrace/fio profiling while treating cardinality-estimation plan regressions, tail-latency spikes under skew, unfair...

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Digital Pathology Scientist · stanfish06 bundle
Expert-thinking profile for Digital Pathology Scientist (clinical / research): Reasons from whole-slide pixels, pathologist-ground-truth label levels, and stain/scanner batch effects through QuPath, CLAM/TIAToolbox MIL, Macenko/Vahadane normalization, and MI-CLAIM/TRIPOD+AI standards while treating patch-level leakage, scanner-ID shortcuts, attention-on-necrosis artifacts, and...

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Huggingface Paper Publisher · stanfish06 bundle
Publish and manage research papers on Hugging Face Hub. Supports creating paper pages, linking papers to models/datasets, claiming authorship, and generating professional markdown-based research articles.

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Integrated Circuit Designer · stanfish06 bundle
Expert-thinking profile for Integrated Circuit Designer (custom analog/RF / mixed- signal / DRC-LVS-PEX signoff / corner & Monte Carlo / tapeout & silicon debug): Reasons from spec through Virtuoso schematic/layout, Calibre DRC/LVS/RCX, and foundry PDK corners across analog, mixed-signal, RF, and structured digital blocks; treats TT- only signoff, LVS-without-PEX, and common-centroid violations as first-class tapeout failure modes.

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Machine Learning Researcher · stanfish06 bundle
Expert-thinking profile for Machine Learning Researcher (computational / empirical & theoretical machine learning research): Reasons from population risk, double descent, and inductive bias; enforces sacred test sets, hierarchical ablations, nested CV, and HELM/Dynabench-aware benchmarking; reports with NeurIPS and Pineau reproducibility checklists while treating leakage, meta-overfitting, benchmark contamination, Goodhart gaming, and seed...

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Matlab Analyze Dependencies · stanfish06 bundle
Analyze the effective toolbox file set to produce a Dependency Manifest — classify all transitive dependencies as included, product, add-on, or external-unresolved, then present resolution options with tradeoffs. Use after matlab-define-toolbox-api when the spec is approved.

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Matlab Optimize Performance · stanfish06 bundle
Read BEFORE optimizing any MATLAB code for speed. Without this workflow, agents commonly optimize the wrong target, fabricate speedup claims without measurement, or introduce regressions. Guides the 7-step workflow: baseline, profile, identify, optimize, measure, verify, report.

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Neo4j Document Import Skill · stanfish06 bundle
Ingests unstructured and semi-structured documents into Neo4j as a knowledge graph. Use when chunking PDFs, HTML, plain text, or Markdown; extracting entities and relationships from text with an LLM (SimpleKGPipeline, neo4j-graphrag); loading JSON via apoc.load.json; building Document→Chunk→Entity graph structures; or connecting LangChain/LlamaIndex document loaders to Neo4j. Covers neo4j-graphrag SimpleKGPipeline, LLM Graph Builder web UI, entity resolution, chunking strategies, and graph schema design for RAG pipelines. Does NOT handle structured CSV/relational import — use neo4j-import-skill. Does NOT handle GraphRAG retrieval after ingestion — use neo4j-graphrag-skill. Does NOT handle vector index creation — use neo4j-vector-search-skill.

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Pharmacovigilance Scientist · stanfish06 bundle
Expert-thinking profile for Pharmacovigilance Scientist (regulatory / drug safety surveillance (clinical & post-marketing)): Reasons from ICSR validity, MedDRA/SMQ coding, seriousness/expectedness/listedness, WHO-UMC causality, and PRR/ROR/IC/EBGM signal workflows through E2B(R3), EudraVigilance/FAERS/VigiBase, GVP Modules VI–IX, and PSUR/PBRER/RMP while treating duplicates, MLM scope, innocent-bystander confounding, and Weber/stimulated...

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Mechanical Design Engineer · stanfish06 bundle
Expert-thinking profile for Mechanical Design Engineer (CAD / GD&T / tolerance / DFM): Reasons from function, datum reference frames, and tolerance budgets; releases inspectable drawings and MBD through ASME Y14.5 GD&T, WC/RSS/Monte Carlo stack-ups, SAE J1739 DFMEA (Action Priority), and Boothroyd–Dewhurst DFM/DFA—not stress plots alone.

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Muon Multiomics Singlecell · stanfish06
Multi-modal single-cell analysis with muon/MuData. Joint RNA+ATAC (10x Multiome), CITE-seq (RNA+protein), other multi-omics. MuData holds per-modality AnnData with shared obs. WNN joint embedding, per-modality preprocessing, MOFA factor analysis. Use scanpy-scrna-seq for single-modality RNA; use muon when combining 2+ omics from the same cells.

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Ngs Dna Umi Panel Variants · stanfish06 bundle
Run or plan targeted DNA panel variant workflows that use UMIs, duplex consensus reads, molecular barcodes, low-frequency calling, target coverage, and panel-specific QC.

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Nuclear Medicine Scientist · stanfish06 bundle
Expert-thinking profile for Nuclear Medicine Scientist (clinical / research): Reasons from radioactive decay, biodistribution kinetics, and detector physics through HPLC/TLC radiochemical-purity QC, dose-calibrator cross-calibration, OSEM/PSF reconstruction, and MIRD/OLINDA dosimetry while treating partial-volume effects, attenuation mismatch, 68Ge breakthrough and other radionuclidic impurity...

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Palliative Care Researcher · stanfish06 bundle
Expert-thinking profile for Palliative Care Researcher (clinical trials / symptom science / patient-reported outcomes / health services / reporting (CONSORT-PRO, SPIRIT, PCORI)): Reasons from serious-illness trajectories, multidimensional symptom burden, goals-of-care concordance, and caregiver dyad outcomes through validated PROMs (ESAS-r, IPOS, FACIT-Pal), prespecified MCID responder analysis, mixed-effects and joint survival-QoL models, and CONSORT-PRO/SPIRIT/PCORI reporting while treating...

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Pollution Control Engineer · stanfish06 bundle
Expert-thinking profile for Pollution Control Engineer (design / engineering / regulatory compliance): Reasons from PTE, Title V Part 70, and NPDES limits through scrubber/baghouse/ESP/RTO selection, CEMS and stack-test demonstration, and parametric O&M (ΔP, pH, L/G) while treating synthetic-minor strategy, sulfite-blinded FGD, bag leaks, and WET/TIE toxicity as first-class failure modes.

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Power Electronics Engineer · stanfish06 bundle
Expert-thinking profile for Power Electronics Engineer (converter design / magnetics / WBG semiconductors / loop-gain control / EMI-EMC / regulatory (CISPR, IEC 61000-3-2, IEEE 1547.1)): Reasons from volt-second and charge balance, switched-mode energy transfer, and small-signal loop gain through PLECS/LTspice/SIMPLIS simulation, Steinmetz and Dowell magnetics loss accounting, Bode injection on hardware, and LISN- based EMI scans while treating shoot-through, RHP-zero subharmonic oscillation, Qrr and...

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Propose Security Hardening · stanfish06 bundle
Develop evidence-backed structural and architectural security hardening proposals from vulnerability disclosures, supplied findings, incident or assessment documents, source code, or a completed Codex Security scan. Use when a user asks for systemic improvements, alternatives beyond per-finding patches, before-and-after security architecture views, engineering tradeoff analysis, or an implementation-ready plan for a selected hardening option. Also use automatically after a Codex Security scan with reportable findings when the top-level scan workflow requests final-report hardening guidance.

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Quantum Optics Scientist · stanfish06 bundle
Expert-thinking profile for Quantum Optics Scientist (optical bench / single-photon & squeezed-light / cavity QED / correlation & homodyne metrology): Reasons from field quadratures, atom-photon coupling (g, κ, γ), and heralding efficiency budgets through g⁽²⁾ Hanbury Brown-Twiss measurement, balanced homodyne tomography, HOM interference, and SNSPD/APD detector calibration while treating afterpulsing-faked antibunching, LO phase drift erasing squeezing, accidentals...

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Rehabilitation Scientist · stanfish06 bundle
Expert-thinking profile for Rehabilitation Scientist (clinical / biomechanics lab / implementation-science rehabilitation research): Reasons from ICF/disablement models, COSMIN MCID/MDC triangulation, TIDieR-Rehab/CONSORT 2025 trial design, gait lab and PROMIS outcomes, motor-learning mechanisms, and RE-AIM implementation science; treats natural recovery, therapist allegiance, and lab-vs-function confounds as first-class failure modes.

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Remote Sensing Scientist · stanfish06 bundle
Expert-thinking profile for Remote Sensing Scientist (Earth observation / optical-SAR- LiDAR / atmospheric & geometric correction / change detection / Olofsson validation): Reasons from sensor physics, atmospheric state, surface BRDF, and sampling geometry through Sen2Cor/LaSRC/6S atmospheric correction, sub-pixel coregistration, SAR radiometric terrain correction, and Olofsson area-adjusted accuracy while treating misregistration, NDVI saturation, BRDF anisotropy, mixed pixels, and...

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Scirpy Immune Repertoire · stanfish06
Single-cell immune receptor analysis with Scirpy for scanpy, anndata, and scvi-tools projects. Use for TCR/BCR V(D)J import, clonotype definition, clonal expansion, repertoire overlap, immune receptor QC, MuData/AnnData integration, and Scanpy-linked immune repertoire visualization.

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Soil Fertility Scientist · stanfish06 bundle
Expert-thinking profile for Soil Fertility Scientist (soil testing / nutrient management / 4R stewardship / liming & pH / precision-ag VRT): Reasons from plant- available nutrient supply, pH-governed availability, and CEC/base saturation through Mehlich-3 extraction, buffer-pH lime calculations with ECCE/ENM, 4R stewardship, and regional extension calibration while treating uncalibrated cross-extractant comparison, no-till stratification, environmental...

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Sustainability Scientist · stanfish06 bundle
Expert-thinking profile for Sustainability Scientist (sustainability reporting / GHG accounting (GHG Protocol, GRI/ISSB/ESRS) / planetary boundaries / circularity & nexus / scenario analysis): Reasons from measurable capitals, planetary-boundary safe operating space, and absolute-versus-intensity impact through GHG Protocol Scope 1/2/3 accounting, GRI/ISSB/ESRS disclosure, MCI circularity and MFA, and IPCC SSP/IEA/NGFS scenario analysis, while treating greenwashing offsets without additionality or...

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Template Instantiation · stanfish06
Creates .NET projects from templates with validated parameters, smart defaults, Central Package Management adaptation, and latest NuGet version resolution. USE FOR: creating new dotnet projects, scaffolding solutions with multiple projects, installing or uninstalling template packages, creating projects that respect Directory.Packages.props (CPM), composing multi-project solutions (API + tests + library), getting latest NuGet package versions in newly created projects. DO NOT USE FOR: finding templates (use template-discovery), producing a detailed side-by-side comparison of templates (use template-comparison), authoring custom templates (use template-authoring), deciding cross-parameter defaults such as which framework to pair with native AOT or whether to keep HTTPS when auth is enabled (use template-smart-defaults), modifying existing projects or adding NuGet packages to existing projects.

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Wes Clinical Report En · stanfish06 bundle
Generates professional clinical PDF reports in English from WES (Whole Exome Sequencing) data with clinical interpretation summary, pharmacogenomic alerts, and follow-up recommendations.

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Wes Clinical Report Es · stanfish06 bundle
Generates professional clinical PDF reports in Spanish from WES (Whole Exome Sequencing) data with clinical interpretation, pharmacogenomic alerts, and follow-up recommendations.

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Zoom Video Sdk Flutter · stanfish06 bundle
Zoom Video SDK for Flutter. Use when building custom video session apps in Flutter with flutter_zoom_videosdk, event-driven architecture, session lifecycle handling, and mobile platform integration patterns.

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Zoom Virtual Agent IOS · stanfish06 bundle
Zoom Virtual Agent iOS integration via WKWebView. Use for Swift/Objective-C script injection, message handlers, support_handoff relay, and URL routing policies.

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Zoom Virtual Agent Web · stanfish06 bundle
Zoom Virtual Agent SDK for web embeds. Use for campaign or entry ID chat launch, event-driven controls, user context updates, and CSP-safe deployment.

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Agentic Actions Auditor · stanfish06 bundle
Audits GitHub Actions workflows for security vulnerabilities in AI agent integrations including Claude Code Action, Gemini CLI, OpenAI Codex, and GitHub AI Inference. Detects attack vectors where attacker-controlled input reaches AI agents running in CI/CD pipelines, including env var intermediary patterns, direct expression injection, dangerous sandbox configurations, and wildcard user allowlists. Use when reviewing workflow files that invoke AI coding agents, auditing CI/CD pipeline security for prompt injection risks, or evaluating agentic action configurations.

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Astroparticle Physicist · stanfish06 bundle
Expert-thinking profile for Astroparticle Physicist (low-rate counting / neutrino astronomy / dark-matter direct detection / cosmic-ray composition / multimessenger / Geant4-CORSIKA simulation): Reasons from flux times cross section times acceptance, Poisson counting over structured backgrounds, and Cherenkov photoelectron budgets through SkyLLH unbinned likelihoods, Geant4/CORSIKA chains validated on through-going- muon and calibration samples, and Feldman-Cousins/CLs limits, while treating...

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Binlog Failure Analysis · stanfish06
Analyze MSBuild binary logs to diagnose build failures. USE FOR: build errors that are unclear from console output, diagnosing cascading failures across multi-project builds, tracing MSBuild target execution order, and generally any MSBuild build issues. Requires an existing .binlog file. DO NOT USE FOR: generating binlogs (use binlog-generation), non-MSBuild build systems.

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Bio Manuscript Pipeline · stanfish06 bundle
End-to-end bio-manuscript planning pipeline orchestrator: turn structured research input into a full manuscript plan. Use to run the multi-step workflow (innovation check, task/dataset/metric/analysis design, figure design, drafting, refinement) phase by phase using the sibling bio-* skills and bio-manuscript-common templates.

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Migrate Static To Wrapper · stanfish06
Replace existing static dependency call sites with a wrapper or built-in abstraction that already exists or is registered in DI. Codemod-style bulk replacement of DateTime.Now/UtcNow to TimeProvider, File.ReadAllText to IFileSystem, and similar, across a bounded scope (file, project, namespace), adding constructor injection to affected classes and updating their unit tests to use a test double. USE FOR: replace DateTime.UtcNow/DateTime.Now with TimeProvider and add the constructor parameter, migrate static call sites to a wrapper already in DI, bulk replace File.* with IFileSystem, scoped migration of statics in only certain files, migrate a service to TimeProvider and update its unit tests to a controllable/fake time source, update test doubles when migrating off static DateTime/File calls. DO NOT USE FOR: detecting statics (use detect-static-dependencies), creating or registering the wrapper when it does not exist yet (use generate-testability-wrappers), migrating between test frameworks.

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Ngs Bulk Rnaseq Counts Qc · stanfish06 bundle
Run or plan bulk RNA-seq FASTQ-to-count processing with sample-sheet, strandedness, genome annotation, alignment or pseudoalignment, MultiQC, and count-matrix QC checks.

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Ngs Dna Germline Variants · stanfish06 bundle
Run or plan deep germline WGS, WES, targeted-panel, cohort, or trio variant-calling workflows with reference-build, known-sites, QC, joint-calling, and annotation checks.

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Officecli Financial Model · stanfish06
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 a single formula-driven .xlsx. This skill is a scene layer on top of officecli-xlsx — it inherits every xlsx v2 rule (4-color code, visual floor, number formats, cache-drift, Known Issues, Delivery Gate minimum cycle). DO NOT invoke for a simple budget tracker, CSV dump, or operational KPI sheet — route those to officecli-xlsx base.

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Resolving Merge Conflicts · stanfish06 bundle
Use when you need to resolve an in-progress git merge/rebase conflict.

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Snakemake Workflow Engine · stanfish06
Python-based workflow manager for reproducible, scalable pipelines. Define rules with file-based dependencies; Snakemake resolves execution order and parallelism. Runs local, SLURM, LSF, AWS, GCP via profiles; per-rule conda/Singularity envs. For NGS pipelines, ML training, and multi-step file processing. Use Nextflow for Groovy dataflow or nf-core integration.

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Twilio Compliance Traffic · stanfish06 bundle
Rules for Twilio messaging and voice traffic. Covers TCPA (consent tiers, quiet hours, DNC), GDPR (EU consent, right to deletion), PCI DSS (payment recording, Pay verb), HIPAA (BAA, PHI), FDCPA (debt collection limits), CAN-SPAM, WhatsApp policies, SHAKEN/STIR, and consent management patterns. Use when developers have working traffic to ensure they follow the rules.

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Veterinary Epidemiologist · stanfish06 bundle
Expert-thinking profile for Veterinary Epidemiologist (field / observational / herd- health surveillance & infectious-disease modeling): Reasons from herd-level units, Rogan–Gladen prevalence, R₀/SIR transmission models, and WOAH freedom-from-disease surveillance through outbreak line lists, SaTScan clusters, cluster field trials (REFLECT), and STROBE-Vet/AHSURED reporting while treating pseudo-replication, test- biased apparent prevalence...

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Veterinary Microbiologist · stanfish06 bundle
Expert-thinking profile for Veterinary Microbiologist (diagnostic bacteriology- mycology-virology / reference lab & herd surveillance): Reasons from pre-analytic specimen quality, CLSI VET01 AST, MALDI-TOF/PCR/WGS, and ISCAID significance thresholds through ACVM/AAVLD/WOAH workflows, NARMS/Vet-LIRN AMR surveillance, and One Health zoonoses while treating wound-swab contaminants, PCR-without-viability, human breakpoints on veterinary isolates, DTM...

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Vlsi Chip Design Engineer · stanfish06 bundle
Expert-thinking profile for VLSI / Chip Design Engineer (RTL-to-GDSII / MCMM STA signoff / DFT-ATPG / physical verification (DRC/LVS) / tapeout): Reasons from PPA tradeoffs, timing slack, on-chip variation, and foundry rule decks through MCMM STA with OCV/POCV in PrimeTime/Tempus, UPF power intent, SpyGlass/JasperGold CDC, and Calibre DRC/LVS while treating clock-domain crossings, post-CTS hold violations, IR drop, and TT-only signoff as first-class failure...

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Water Resources Scientist · stanfish06 bundle
Expert-thinking profile for Water Resources Scientist (hydrologic modeling / groundwater-surface coupling / water-budget allocation / remote sensing (GRACE, OpenET) / climate-water planning): Reasons from hydrologic-cycle mass and energy balance, green-versus-blue water, and nonstationarity through MODFLOW, SWAT/HEC-RAS, WEAP, Budyko closure, and multi-objective KGE/NSE calibration while treating equifinality, unaccounted return flows and stream depletion, single-drought-year safe yield, and...

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Zoom Meeting Sdk Electron · stanfish06 bundle
Zoom Meeting SDK for Electron desktop applications. Use when embedding Zoom meetings in an Electron app with the Node addon wrapper, JWT auth, join/start flows, settings controllers, and raw data integration.

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Causal Inference Scientist · stanfish06 bundle
Expert-thinking profile for Causal Inference Scientist (DAGs / potential outcomes / quasi-experiments (DiD, RD, IV) / doubly-robust estimation / sensitivity analysis): Reasons from structural causal models, potential outcomes, and identification logic through DAGs and do-calculus, doubly-robust estimators (AIPW/TMLE, IPTW, g-formula), and design-based methods (IV, RD, Callaway-Sant'Anna DiD, synthetic control) while treating colliders and M-bias, positivity/overlap failure, and...

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Cognitive Neuroscientist · stanfish06 bundle
Expert-thinking profile for Cognitive Neuroscientist (human experimental / fMRI–EEG–MEG / behavioral cognitive neuroscience): Reasons from latent constructs through converging behavior, fMRI/M/EEG, TMS, and lesion evidence; designs factorial and dissociation contrasts, fMRIPrep/GLMsingle/MNE pipelines, MVPA/RSA, and COBIDAS reporting while treating pure insertion, reverse inference, motion confounds, and in- sample decoding as first-class...

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Comparative Physiologist · stanfish06 bundle
Expert-thinking profile for Comparative Physiologist (integrative / respirometry / field & lab comparative biology): Reason from the Krogh principle and oxygen cascade through intermittent-flow respirometry, SMR/BMR/MMR scope, Q10 and heterothermy, hemoglobin P50, allometry and PGLS, while treating chamber drift, activity artifacts, phylogenetic pseudoreplication, and SMR definition mismatch as first-class failure modes.

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Control Systems Engineer · stanfish06 bundle
Expert-thinking profile for Control Systems Engineer (feedback design / state-space & robust control / digital implementation / industrial (PLC/DCS, IEC 61508/61511)): Reasons from plant dynamics, stability margins, and disturbance-rejection specs through Bode/Nyquist and Routh-Hurwitz analysis, LQR/H-infinity and pole placement, Kalman/EKF observers, RGA pairing, and HIL validation while treating integrator windup, actuator saturation and backlash limit cycles, sensor delay masking...

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Critical Care Researcher · stanfish06 bundle
Expert-thinking profile for Critical Care Researcher (clinical / research): Reasons from acute physiology trajectories, modular organ dysfunction, and cluster-aware trial design through APACHE/SAPS/SOFA scoring, Berlin/Sepsis-3/KDIGO definitions, MIMIC-IV phenotyping, and target-trial emulation with clone-censor-weighting while treating immortal-time bias, cluster contamination, competing...

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Design Taste Frontend V1 · stanfish06
The original v1 taste-skill, preserved for projects depending on its exact behavior. The current default is `design-taste-frontend` (v2 experimental), which is a substantial rewrite. Use this v1 install name only if you need exact backward compatibility.

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Dotnet Coverage Analysis · stanfish06 bundle
Project-wide code coverage and CRAP (Change Risk Anti-Patterns) score analysis for .NET projects. Calculates CRAP scores per method and surfaces risk hotspots — complex code with low coverage that is dangerous to modify. Use to diagnose why coverage is stuck or plateaued, identify what methods block improvement, or get project-wide coverage analysis with risk ranking. USE FOR: coverage stuck, coverage plateau, can't increase coverage, what's blocking coverage, coverage gap, CRAP scores, risk hotspots, where to add tests, coverage analysis, coverage report. DO NOT USE FOR: targeted single-method CRAP analysis (use crap-score); auditing test code for coverage-touching or other anti-patterns (use test-anti-patterns); writing tests; running tests (use run-tests). Requires or produces coverage (Cobertura) and CRAP metrics.

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Fire Protection Engineer · stanfish06 bundle
Expert-thinking profile for Fire Protection Engineer (design / engineering / performance-based fire modeling): Reasons from NFPA 13 Hazen-Williams hydraulics (K-factor, remote area, hose stream) and NFPA 101 egress (occupant load, travel distance, capacity factors) through NFPA 92 smoke containment/management, ASET/RSET PBD, and FDS/CFAST/CONTAM/PyroSim modeling while treating breached compartmentation, C-factor/fitting...

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Flavor Fragrance Chemist · stanfish06 bundle
Expert-thinking profile for Flavor & Fragrance Chemist (aroma chemistry / GC-MS-O analysis / sensory evaluation / formulation / regulatory (IFRA, FEMA GRAS)): Reasons from odor activity values, threshold perception, matrix release, and degradation kinetics through GC-MS with retention indices, GC-O/AEDA, chiral GC authentication, ISO 8586 trained sensory panels, and IFRA/FEMA regulatory limits while treating aldehyde oxidation, citral cyclization, top-note fade, and...

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Fluid Mechanics Engineer · stanfish06 bundle
Expert-thinking profile for Fluid Mechanics Engineer (plant hydraulics / piping & pump systems / CFD verification): Reasons from Navier–Stokes reductions through Darcy–Weisbach/Crane TP-410 pipe networks, pump system curves, NPSH/affinity laws, HI turbomachinery selection, and ASME V&V 20 CFD validation when simulation supports design.

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Geological Oceanographer · stanfish06 bundle
Expert-thinking profile for Geological Oceanographer (seafloor mapping / sedimentology / marine geophysics / coring & seismic / geohazards): Reasons from sediment transport mechanics, stratigraphic context, and accommodation through multibeam (EM122/EM712) and sub-bottom/seismic imaging, gravity and piston cores with XRF/X-ray CT, CTD tow-yo ORP/Mn/CH4 plume surveys, and Bouma/Lowe facies analysis, while treating bathymetry- mimicking multipath artifacts...

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Global Health Researcher · stanfish06 bundle
Expert-thinking profile for Global Health Researcher (field / health systems / implementation & mixed-methods research): Reasons from burden, equity, and health- system building blocks through DHS/MICS/DHIS2/GBD triangulation, cluster and stepped- wedge designs, RE-AIM/CFIR implementation science, and CIOMS-fair partnership while treating survey weights, HMIS completeness, and GBD smoothing as first-class failure modes.

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Instrumentation Engineer · stanfish06 bundle
Expert-thinking profile for Instrumentation Engineer (I&C loops / 4-20 mA & HART / calibration & metrology / safety systems (ISA-84/IEC 61511)): Reasons from the process variable, its transduction chain, 4-20 mA loop integrity, and traceable calibration through ISA-5.1 P&IDs, NAMUR NE43 fault bands, ISO 5167 orifice sizing, and GUM uncertainty budgets while treating plugged impulse lines, double-applied square-root, ground-loop noise, and unrevalidated SIS...

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Molecular Neuroscientist · stanfish06 bundle
Expert-thinking profile for Molecular Neuroscientist (wet-lab / synaptic biochemistry + optogenetics + viral tracing + region RNA-seq): Reasons from NPQ transmission, AMPAR/NMDAR trafficking, monoamine receptor/transporter systems, optogenetics (ChR2/Chrimson/ACR) with retinal-artifact controls, AAV/rabies circuit tracing, and region RNA-seq with DESeq2/SynGO—integrating synaptic biochemistry, perturbation, and omics while treating mini-detection...

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Monai Medical Imaging AI · stanfish06
Medical imaging deep learning with MONAI, PyTorch, pydicom, pathml, histolab, and napari-viz. Use for segmentation, classification, registration, transforms, sliding-window inference, NIfTI/DICOM workflows, medical image datasets, and reproducible clinical imaging AI pipelines.

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Bioinformatics Engineer · stanfish06 bundle
Expert-thinking profile for Bioinformatics Engineer (dry-lab / pipeline engineering / production genomics): Builds production genomics DAGs in Nextflow/nf-core, Snakemake, and WDL/Cromwell with digest-pinned containers, GIAB regression CI (nf-test, pytest), QC-gated MultiQC runbooks, and CLIA-grade provenance—distinct from analyst-focused bioinformatician DE/GWAS reasoning.

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Cellular Neuroscientist · stanfish06 bundle
Expert-thinking profile for Cellular Neuroscientist (wet-lab / patch-clamp electrophysiology / live-cell imaging / culture-slice-iPSC preparations / synaptic physiology): Treat the neuron as a cable with active channels, not a point integrator unless you have shown it is one for your question. Separate voltage, calcium, and fluorescence observables. GCaMP reports Ca²⁺-driven fluorescence with indicator kinetics; it is not membrane potential. FRET sensors (ArcLight, ASAP) trade speed...

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Clinical Epidemiologist · stanfish06 bundle
Expert-thinking profile for Clinical Epidemiologist (clinical / dry-computational (observational & evidence synthesis)): Clinical epidemiology expert for causal study design, observational bias control, GRADE/EBM synthesis, and principled reporting (CONSORT/STROBE/PRISMA).

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Clinical Microbiologist · stanfish06 bundle
Expert-thinking profile for Clinical Microbiologist (clinical diagnostic microbiology / bacteriology service line): Reasons from blood-culture volume and contamination criteria, staged Gram–ID–AST reporting, MALDI-TOF/VITEK/Phoenix and EUCAST RAST, CLSI M100 vs EUCAST breakpoint discipline, WHONET antibiograms, and NHSN MDRO alerts—treating contaminant vs pathogen and VME/ME as first-class failure modes.

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Clinical Pharmacologist · stanfish06 bundle
Expert-thinking profile for Clinical Pharmacologist (clinical / translational pharmacometrics & regulatory PK/PD): Reasons from exposure–response, popPK (NONMEM), DDI (ICH M12), TDM/NTI windows, and renal/hepatic/allometric adjustment; aligns dose finding with ICH E4 and FDA clinical pharmacology labeling.

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Clinvar Variation Skill · stanfish06 bundle
Submit compact ClinVar Clinical Tables and NCBI Variation requests for search, VCV, RCV, SCV, and RefSNP lookups. Use when a user wants variant-level summaries or identifier mapping

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Code Review And Quality · stanfish06
Conducts multi-axis code review. Use before merging any change. Use when reviewing code written by yourself, another agent, or a human. Use when you need to assess code quality across multiple dimensions before it enters the main branch.

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Communications Engineer · stanfish06 bundle
Expert-thinking profile for Communications Engineer (digital / wireless & wired PHY / link & system simulation): Reasons from Shannon capacity and matched-filter detection through OFDM/MIMO, 3GPP NR LDPC/polar (TS 38.212), TR 38.901 link budgets, Keysight 89600 VSA EVM, ns-3 SLS, and berconfint Monte Carlo while treating CFO/IQ/phase-noise coupling, pre- vs post-FEC BER, and AWGN-only optimism as first-class failure modes.

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Computational Physicist · stanfish06 bundle
Expert-thinking profile for Computational Physicist (computational / dry / HPC simulation): Reasons from governing equations, discretization, and HPC scaling through code/solution verification, DFT, MD, Monte Carlo, and FEM/FVM workflows (VASP, LAMMPS, COMSOL, OpenFOAM, QE).

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Cellpose Cell Segmentation · stanfish06
DL cell/nucleus segmentation for fluorescence and brightfield microscopy with Cellpose 4's Cellpose-SAM and CellposeDINO models. Handles grayscale, multichannel, 2D, and 3D images and outputs label masks for morphology and tracking. Use scikit-image watershed for rule-based segmentation; use Cellpose when learned generalization is needed.

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Cellpose Stardist Bioimage · stanfish06
Bioimage cell and nucleus segmentation routing with cellpose-cell-segmentation, Cellpose, StarDist, napari-viz, and monai-medical-imaging-ai. Use when choosing or comparing segmentation models for microscopy, nuclei, cells, 2D/3D images, masks, overlays, fine-tuning, and segmentation quality control.

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Computer Hardware Engineer · stanfish06 bundle
Expert-thinking profile for Computer Hardware Engineer (RTL / microarchitecture / physical design / verification): Reasons from CPI/AMAT and MESI/MOESI coherence through SystemVerilog RTL, PrimeTime/Design Compiler/Innovus signoff, PCIe LTSSM/TLP, SVA formal, and clock-gating power while treating CDC metastability, false-path abuse, X-optimism, and coherency traffic as first-class failure modes.

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Condensed Matter Physicist · stanfish06 bundle
Expert-thinking profile for Condensed Matter Physicist (experimental / computational / quantum materials): Reasons from Bloch bands, quasiparticles, and symmetry through ARPES/STM/neutron/transport workflows, VASP/QE/Wannier90/DMFT, and Materials Project/ICSD/MPDS while treating matrix-element artifacts, Mott vs. DFT gaps, pseudogap vs. SC gap, and Planckian bad-metal transport as first-class failure modes.

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Databricks Aibi Dashboards · stanfish06 bundle
Create Databricks AI/BI dashboards. Must use when creating, updating, or deploying Lakeview dashboards as Databricks Dashboard have a unique json structure. CRITICAL: You MUST test ALL SQL queries via CLI BEFORE deploying. Follow guidelines strictly.

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Developmental Psychologist · stanfish06 bundle
Expert-thinking profile for Developmental Psychologist (longitudinal cohorts / age- normed psychometrics / ToM & EF paradigms / looking-time methods / IRB assent (45 CFR 46 subpart D)): Reasons from developmental trajectories, measurement invariance, and familial-environmental context through age-normed instruments (Bayley, WPPSI/WISC, CBCL, MacArthur-Bates CDI), false-belief and violation-of-expectation paradigms, and lme4/lavaan growth models while treating verbal-demand confounding of theory of...

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Dynamical Systems Theorist · stanfish06 bundle
Expert-thinking profile for Dynamical Systems Theorist (analysis + numerics / bifurcation theory / normal forms / continuation (AUTO, MatCont) / chaos diagnostics): Reasons from state spaces, invariant sets, bifurcations, and multiple time scales through normal-form classification, center-manifold reduction, Floquet/Poincaré maps, and continuation tools like AUTO, MatCont, and DynamicalSystems.jl while treating spurious chaos from finite-time Lyapunov bias, false limit cycles...

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Electric Machines Engineer · stanfish06 bundle
Expert-thinking profile for Electric Machines Engineer (electromechanical design / motor drives): Reasons from magnetic circuit design, dq-frame machine models, FEM flux paths, and drive efficiency maps while treating saturation, cogging, thermal derating, and inverter harmonics as first-class failure modes.

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Git Guardrails Claude Code · stanfish06 bundle
Set up Claude Code hooks to block dangerous git commands (push, reset --hard, clean, branch -D, etc.) before they execute. Use when user wants to prevent destructive git operations, add git safety hooks, or block git push/reset in Claude Code.

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High Energy Astrophysicist · stanfish06 bundle
Expert-thinking profile for High-Energy Astrophysicist (observational / computational X-ray & gamma-ray): Reasons from Compton/synchrotron radiative processes and compact- object energetics through HEASARC/Fermi/Swift/XMM/Chandra/NuSTAR/XRISM pipelines, XSPEC/Sherpa spectral fitting, pile-up and background systematics, blazar/GRB/TDE campaigns, and GCN multi-messenger coordination while treating RMF versioning, soft- proton...

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LLM Agent Security Redteam · stanfish06
LLM and agent security red teaming with agentic-actions-auditor, supply-chain-risk-auditor, semgrep, codeql, and sarif-parsing. Use for prompt injection, tool misuse, data exfiltration, excessive agency, insecure output handling, supply-chain risk, retrieval poisoning, and OWASP LLM Top 10 style threat modeling.

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Locuscompare Region Render · stanfish06 bundle
Render a 4-panel regional LocusCompare diagnostic for one (lead variant, exposure study, outcome study) tuple - overlays GWAS Manhattan, QTL Manhattan, GENCODE gene track, and cross-trait scatter colored by LD r². Use when an agent needs visual confirmation that two GWAS / QTL signals share the same causal variant (the Liu 2019 LocusCompare convention). Inputs: lead variant + two pre-fetched harmonised sumstats slices (or eQTL Catalogue / GWAS Catalog identifiers for bundled fetch). Output: PNG + JSON manifest.

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Natural Products Chemist · stanfish06 bundle
Expert-thinking profile for Natural Products Chemist (wet-lab / isolation & structure elucidation / metabolomics-guided discovery): Reasons from dereplication (GNPS FBMN, NPAtlas, SNAP-MS, COCONUT), bioassay-guided and MS-triggered isolation, NMR/HRMS structure tiers (DP4+/DU8+), antiSMASH/MIBiG BGC linkage, and PAINS/IMP assay interference while treating HMBC ambiguity, stereochemical misassignment, and aggregator false positives as first-class...

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Ngs Chip Cutrun Peaks Qc · stanfish06 bundle
Run or plan ChIP-seq, CUT&RUN, or CUT&Tag QC, control handling, spike-in, peak calling, broad-vs-narrow target selection, replicate, bigWig, and differential binding workflows.

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Ngs Dna Somatic Variants · stanfish06 bundle
Run or plan tumor-normal, tumor-only, WGS, WES, or cancer-panel somatic variant workflows with pairing, contamination, panel-of-normals, purity, QC, and annotation checks.

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Ngs Shotgun Metagenomics · stanfish06 bundle
Kick off public shotgun metagenomics QC, host-depletion, taxonomic profiling, and functional profiling workflows using nf-core/taxprofiler, Kraken2, Bracken, MetaPhlAn, and HUMAnN.

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1088 published skills · page 2 of 11