Model Verification, Validation & Reproducibility — Hands-on

Learn how to make systems biology models trustworthy, transparent and reproducible. This module covers concepts of model verification versus validation, numerical and structural checks, calibration and predictive performance assessment, uncertainty and sensitivity summaries, as well as documentation and FAIR model sharing. You will implement practical workflows in Python/R and standard tools to create models that reviewers, collaborators and regulators can trust.

Model Verification, Validation & Reproducibility

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Session Index

Session 1 — Concepts of V&V, Credibility & Good Practice Session 2 — Structural & Numerical Verification Session 3 — Validation, Predictive Checks & Uncertainty Session 4 — Mini Capstone: V&V Plan & Reproducible Release

Session 1

Fee: Rs 8800

Concepts of V&V, Credibility & Good Practice

Definitions: verification, validation & uncertainty

verification vs validation vs calibration concept of model credibility intended use and context of use

Good modeling practice in systems biology

assumptions, limitations and scope traceability from biology to equations documentation and code organization

Standards, checklists & reporting expectations

MIASE, MIRIAM style ideas (high level) journal and community expectations links to SBML, SBGN & COMBINE use

Session 2

Fee: Rs 11800

Structural & Numerical Verification

Structural checks on models

mass balance and conservation checks (concepts) units, dimensions and sanity ranges parameter and initial condition review

Numerical verification & solver behavior

time step and tolerance sensitivity (overview) stiff vs non stiff systems detecting numerical artifacts

Code verification & regression tests

unit style tests for model components reference trajectories and baseline runs Python/R test harness examples

Session 3

Fee: Rs 14800

Validation, Predictive Checks & Uncertainty

Validation against data and literature

calibration vs validation data splits goodness of fit and residual checks qualitative and semi quantitative checks

Predictive checks & scenario testing

posterior predictive style checks (concept level) out of sample and cross validation ideas comparing alternative model structures

Uncertainty, sensitivity & robustness summaries

parameter uncertainty impact (concepts) linking to sensitivity analysis outputs communicating uncertainty to users

Session 4

Fee: Rs 18800

Mini Capstone: V&V Plan & Reproducible Release

Designing a simple V&V plan for a model

Theory + Practical

Implementing checks, tests & validation summaries

structural and numerical verification snippets basic validation and predictive plots confidence and caveats text blocks

Packaging for reproducibility and sharing

code notebooks and environment files SBML/COMBINE or similar formats (high level) PDF/HTML V&V report ready for collaborators

PDF

Model Verification, Validation & Reproducibility Training | Credible & FAIR Systems Biology Models

Model Verification, Validation & Reproducibility — Hands-on