Topic: llm
10,059 skills in this topic.
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numerical-integration
Select and configure time integration methods for ODE and PDE simulations — choose among explicit Runge-Kutta, BDF, Rosenbrock, and Adams families, set relative and absolute error tolerances, implement adaptive step-size control with I/PI/PID controllers, plan IMEX operator splitting for mixed stiff and non-stiff terms, and estimate splitting errors. Use when picking an integrator for a new simulation, diagnosing step rejections or tolerance failures, setting up operator splitting for phase-field or reaction-diffusion problems, or deciding between explicit and implicit time marching, even if the user only says "my solver keeps rejecting steps" or "which ODE method should I use."
HeshamFS/materials-simulation-skills 29
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nonlinear-solvers
Select and configure nonlinear solvers for root-finding f(x)=0, optimization min F(x), and least-squares problems — choose among Newton, Newton-Krylov, quasi-Newton (BFGS, L-BFGS), Broyden, Anderson acceleration, and Levenberg-Marquardt methods, configure line search or trust-region globalization, diagnose convergence rate (quadratic, linear, stagnated), and assess Jacobian quality and conditioning. Use when a Newton solver converges slowly or diverges, choosing between line search and trust region, debugging nonlinear iteration failures in FEM or phase-field codes, or selecting a solver for large-scale unconstrained optimization, even if the user only says "my Newton iterations aren't converging."
HeshamFS/materials-simulation-skills 29
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mesh-generation
Plan and evaluate mesh generation for numerical simulations — estimate grid resolution from physics scales (interface width, boundary layers, wavelengths), check aspect ratios and skewness against quality thresholds, choose between structured, unstructured, and adaptive mesh refinement strategies, and compute grid sizing for 1D/2D/3D domains. Use when setting up a new mesh, diagnosing poor solver convergence caused by mesh quality, deciding how many points to place across a phase-field interface or boundary layer, or preparing a mesh convergence study, even if the user only asks "what resolution do I need" or "why is my solver failing."
HeshamFS/materials-simulation-skills 29
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linear-solvers
Select and configure linear solvers for Ax=b systems arising in numerical simulations — choose between direct (LU, Cholesky) and iterative (CG, GMRES, BiCGSTAB, MINRES) methods, analyze sparsity patterns and matrix conditioning, recommend preconditioners (AMG, ILU, IC), apply row/column scaling, and diagnose convergence stagnation from residual histories. Use when setting up a linear solve for FEM/FVM assembly, debugging slow or stalled Krylov iterations, choosing a preconditioner for SPD or nonsymmetric systems, or investigating ill-conditioning, even if the user only says "my solver is slow" or "GMRES won't converge."
HeshamFS/materials-simulation-skills 29
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differentiation-schemes
Select and apply numerical differentiation schemes for PDE and ODE discretization — generate finite-difference stencils at arbitrary order and accuracy, choose between central, upwind, compact (Pade), and spectral methods, handle boundary stencils, and estimate truncation error scaling. Use when discretizing spatial derivatives, picking a scheme for advection- or diffusion-dominated problems, building custom stencils for nonstandard operators, or comparing dispersion and dissipation properties of candidate schemes, even if the user just says "how do I approximate this derivative" or "my solution is too diffusive."
HeshamFS/materials-simulation-skills 29
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convergence-study
Perform spatial and temporal convergence analysis for solution verification — compute observed convergence orders from grid or timestep refinement studies, apply Richardson extrapolation to estimate discretization error, and calculate the Grid Convergence Index (GCI) per ASME V&V 20 standards. Use when verifying that a numerical solution converges at the expected rate, estimating the error on the finest mesh, checking whether grids are in the asymptotic range, or preparing formal verification reports, even if the user only asks "is my mesh fine enough" or "how accurate is my solution."
HeshamFS/materials-simulation-skills 29
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simulation-validator
Validate simulations across three stages — run pre-flight checks on configuration files (parameter ranges, required fields, disk space), monitor runtime logs for residual growth, NaN/Inf, and adaptive dt collapse, and perform post-flight validation of results (physical bounds, mass/energy conservation, convergence). Diagnose failed simulations with probable-cause analysis and recommended fixes. Use when preparing to launch a simulation, checking whether a running job is healthy, verifying that finished results are trustworthy, or debugging a crash or blow-up, even if the user only says "my simulation crashed" or "can I trust these results."
HeshamFS/materials-simulation-skills 29
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simulation-orchestrator
Orchestrate multi-simulation campaigns — generate parameter sweep configurations (grid, linspace, or Latin Hypercube sampling), initialize and track batch job campaigns, monitor job completion status, and aggregate results with summary statistics across all runs. Use when running a parameter study across dt, kappa, or other simulation inputs, managing dozens or hundreds of simulation configurations, combining outputs from completed batch runs to find the best result, or automating the generate-run-collect workflow for systematic studies, even if the user only says "I need to try many parameter combinations" or "how do I organize a sweep."
HeshamFS/materials-simulation-skills 29
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post-processing
Extract, analyze, and summarize simulation output data — pull spatial fields at specific timesteps, compute time-series trends and detect steady state, extract line profiles through the domain, generate statistical summaries and distributions, calculate derived quantities (gradients, fluxes, volume fractions, interface area), compare results against analytical solutions or experimental data, and produce automated analysis reports. Use when interpreting finished simulation results, checking mass or energy conservation, comparing two runs or meshes, extracting interface profiles from phase-field output, or preparing publication-quality analysis, even if the user only says "what do my results look like" or "did my simulation reach steady state."
HeshamFS/materials-simulation-skills 29
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performance-profiling
Identify computational bottlenecks, analyze parallel scaling, estimate memory requirements, and generate optimization recommendations for materials simulations — parse timing logs to find dominant phases (solver, assembly, I/O), evaluate strong and weak scaling efficiency, profile memory from mesh and field parameters, and detect bottlenecks with actionable fix suggestions. Use when a simulation is running slower than expected, investigating MPI scaling efficiency, planning HPC resource allocation, deciding whether to tune the preconditioner or reduce I/O frequency, or estimating if a problem fits in available RAM, even if the user only says "my simulation is too slow" or "how many nodes do I need."
HeshamFS/materials-simulation-skills 29
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parameter-optimization
Explore and optimize simulation parameters via design of experiments (DOE), sensitivity analysis, and optimizer selection — generate Latin Hypercube, quasi-random, or factorial sample plans, rank parameter influence with sensitivity scores, recommend Bayesian optimization, CMA-ES, or gradient- based methods based on dimension and budget, and fit surrogate models for expensive evaluations. Use when calibrating material properties against experimental data, planning a parameter sweep, performing uncertainty quantification, or choosing an optimization strategy for a simulation with a limited evaluation budget, even if the user only says "which parameters matter most" or "how do I calibrate my model."
HeshamFS/materials-simulation-skills 29
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ontology-validator
Validate material sample annotations against ontology constraints — check that class names and property names exist in the ontology, verify domain and range consistency for object property relationships, assess annotation completeness (required, recommended, and optional properties), and flag unknown or misspelled terms. Use when verifying that CMSO or other ontology annotations are correct before publishing, checking whether all required properties are present for a class like Crystal Structure or Unit Cell, auditing relationship triples between instances, or catching annotation errors early in a FAIR data workflow, even if the user only says "is my annotation correct" or "what am I missing."
HeshamFS/materials-simulation-skills 29
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ontology-mapper
Map materials science terms, crystal structures, and sample descriptions to standardized ontology classes and properties — resolve natural-language concepts to ontology entries with confidence scores, translate Bravais lattice types, space groups, and lattice constants into ontology-compliant annotations, and produce full sample metadata from structured descriptions. Supports any ontology in ontology_registry.json (CMSO, ASMO, etc.). Use when annotating simulation inputs with FAIR metadata, translating "BCC iron" or "FCC copper" into formal ontology terms, preparing machine- readable sample descriptions, or bridging between lab vocabulary and ontology vocabulary, even if the user only says "what CMSO terms describe my material" or "annotate this sample for me."
HeshamFS/materials-simulation-skills 29
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ontology-explorer
Parse, navigate, and query materials science ontology structures — browse class hierarchies, inspect individual classes and their properties, look up object and data property definitions with domain/range, search for ontology terms by keyword, and parse or summarize raw OWL/XML files. Supports the OCDO ecosystem (CMSO, ASMO, CDCO, PODO, PLDO, LDO). Use when exploring what classes or properties an ontology provides, finding the right CMSO term for a crystal structure or simulation concept, understanding parent-child class relationships, or onboarding to an unfamiliar materials ontology, even if the user only says "what ontology terms describe my FCC copper simulation" or "show me the CMSO class hierarchy."
HeshamFS/materials-simulation-skills 29
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the-archivist
This skill should be used when engineering decisions are being made during code implementation. The Archivist enforces decision documentation as a standard practice, ensuring every engineering choice includes rationale and integrates with Architecture Decision Records (ADRs). Use when writing code that involves choosing between alternatives, selecting technologies, designing architectures, or making trade-offs.
Cygnusfear/claude-stuff 3
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4-step-program
Coordinator workflow for orchestrating dockeragents through fix-review-iterate-present loop. Use when delegating any task that produces code changes. Ensures agents achieve 10/10 quality before presenting to human.
Cygnusfear/claude-stuff 3
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test-driven-development
Use when implementing any feature or bugfix, before writing implementation code
Cygnusfear/claude-stuff 3
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delphi
This skill should be used when the user asks to "use delphi", "ask delphi", or wants multiple parallel oracle investigations of the same question to discover divergent insights. Delphi launches multiple oracle agents simultaneously with identical prompts, allowing them to independently explore and potentially discover different paths, clues, and solutions. Results are saved to .oracle/[topic]/ and synthesized into a final document.
Cygnusfear/claude-stuff 3
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ctx
Use when starting a session on a project, returning after time away, or before making significant changes. Essential for building comprehensive understanding of project state through total recall and deep exploration.
Cygnusfear/claude-stuff 3
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obsidian-upgrade
Upgrade Obsidian wikis to latest format. Handles structure migration (phases/tasks → features/specs), comment format upgrades (adding emoji prefixes), and Johnny Decimal feature organization. Use when user mentions "upgrade wiki", "migrate wiki", "update wiki format", or has old-format comments.
Cygnusfear/claude-stuff 3
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writing-plans
Use when you have a spec or requirements for a multi-step task, before touching code
Cygnusfear/claude-stuff 3
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obsidian-plan-wiki
Create and manage behavior specification wikis in Obsidian format. Use when creating specs, documenting features, or when user mentions "wiki", "spec", "feature", or "Obsidian".
Cygnusfear/claude-stuff 3
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chrome-devtools
Control Chrome browser programmatically using chrome-devtools-mcp. Use when user asks to automate Chrome, debug web pages, take screenshots, evaluate JavaScript, inspect network requests, or interact with browser DevTools. Also use when asked about browser automation, web scraping, or testing websites.
Cygnusfear/claude-stuff 3
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writing-clearly-and-concisely
Apply Strunk's timeless writing rules to ANY prose humans will read—documentation, commit messages, error messages, explanations, reports, or UI text. Makes your writing clearer, stronger, and more professional.
Cygnusfear/claude-stuff 3