SAAM II — the reference compartmental modeling suite.
Graphical modeling environment for building, solving, and fitting dynamic systems. Trusted by NIH laboratories, academia, and pharma R&D for four decades — now extended with AI-assisted model construction and a modern programmatic API.
Build models the way you think
SAAM II's graphical workspace lets you assemble compartmental, mechanistic, and physiological models by drag-and-drop. Each compartment, flux, and parameter is a first-class object — editable, linkable, and inspectable at any point during model development.
Behind the canvas, SAAM II's solver handles stiff ordinary differential equations, parameter estimation under measurement error, and the full menu of statistical fits scientists need.
- Drag-and-drop construction — compartments, fluxes, inputs, samples
- Mixed-effects & Bayesian fitting with covariate models
- Native Windows desktop with full API access
- Validated against four decades of published cohorts
Capabilities
SAAM II ships with a complete library of solver routines, statistical fits, and visualization tools — accessible through the GUI or programmatically through the SAAM II API.
What's new
2025–2026AI model construction
Generate SAAM II model files from natural-language descriptions or published equations.
PDF → model
Extract model structure and parameters directly from journal articles into runnable models.
Programmatic access
Run SAAM II models from Python, MATLAB, or batch pipelines via the SAAM II API.
Licensing & access
SAAM II is available under commercial, academic, and trial licenses. Nanomath is the official distributor and provides licensing, training, and ongoing technical support.