computational-modeling-skills

Plugin computational-modeling-skills from marketplace computational-modeling in surajinacademia/theoretical-biophysics-modeling-skills. Commands read from the repo's manifest — 1 month ago.

Skills (9)

• computational-modeling

  Develop, modify, test, or review scientific models and their records, with or without code changes. Use for model formulation, hypothesis testing, numerical verification, and physical validation; coordinate model documents with model-documentation. Exclude generic software engineering, standalone no

• data-visualization

  Create, style, review, or simplify quantitative plots from completed scientific data, including notebook figures and ordinary paper-ready PDFs. Use the visual gallery, a portable style adapter, and direct plotting templates while preserving scientific identity, weighting, and observable definitions.

• lets-be-clear

  Clarify a problem, help the user work through decisions, confirm the scope, and complete the agreed task. Use when invoked, when the user checks shared understanding, when a request is ambiguous, when they are stuck and ask for help deciding, or when schematic-designer delegates a figure brief. Do n

• linear-stability-analysis

  Derive, compute, plot, and report physical linear stability analyses for stationary states of 1D or 2D continuum systems. Use for reaction-diffusion, mechanical, curvature, and related spatial dynamical equations requiring analytical dispersion relations, numerical eigenspectra, or a reproducible La

• model-documentation

  Plan, write, revise, or audit one physics-focused scientific model document from code, an approved plan, or a maintained methods record. Require approval of the plan and fixed structure before drafting; explain physical rationale, defined notation, equations, and numerical methods, then independentl

• paper-reproduce

  Reproduce, assess, or apply a scientific paper's computational model, method, claims, or results. Use for paper-to-code reconstruction, model verification, hypothesis testing, comparison with published experimental or computational evidence, or a requested adaptation. Do not use for a literature sum

• schematic-designer

  Generate or reconstruct scientifically faithful figures from specifications, equations, data, or image references. Use for composite publication design, scientific schematics, image reconstruction, or an exact PDF and outlined-SVG contract. Do not use for an ordinary exploratory, diagnostic, compara

• scientific-notebook

  Create, maintain, execute, or review Jupyter notebooks for scientific research, theoretical modeling, simulations, and scientific data analysis. Use for new research notebooks and targeted edits to existing .ipynb files; standalone model documents and business dashboards are outside this skill's sco

• slurm

  Prepare, submit, inspect, and cancel a single CPU batch job using native Slurm commands. Use for a simple portable Slurm job lifecycle; arrays, sweeps, GPU or distributed execution, and scientific model design are outside this skill.

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