MML Examples Page
This is a collection of simple models illustrating the various MML constructs and GUI features.
Return to complete JSim model archives.
| intro_ode |
introductory ODE model
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| intro_extern |
extern variable to provide input to model
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| intro_const |
constraint example
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| intro_unit |
introduction to MML unit conversion
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| intro_alg |
introductory algebraic model
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| units2 |
equivalent to example6a, but with unit conversion off
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| units3 |
adding user-defined units
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| units4 |
transcendental functions require dimensionless args
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| units1 |
1st unit conversion example
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| ode_implicit |
ODEs with implicit IC and state equations
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| ode1 |
radioactive decay
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| ode_order2 |
2nd order ODE: u:t:t = -u
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| ode_serial |
flow through serial compartments
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| ode_parallel |
flow through parallel compartments
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| ode_comp3 |
3 compartment diffusion
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| icbc1 |
IC/BC consistency problem
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| pde2 |
2 codependent PDEs
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| icbc2 |
IC/BC consistency via modified IC
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| icbc3 |
IC/BC consistency via modified BC
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| pde1 |
1st PDE example
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| sum1 |
simple use of sum() operator
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| legacy |
use of legacy sum() and integral() operators
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| integral1 |
2 examples of integral() operator
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| sum2 |
"summing out" one variable domain
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| integral2 |
"integrating out" one variable domain
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| implicit2 |
linear implicit eqns of 2 variables
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| implicit4 |
linear implicit ODE state eqns
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| implicit3 |
linear implicit eqns in ODE ICs
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| implicit6 |
2 bounded non-linear implicit eqns
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| implicit5 |
bounded non-linear implicit eqn
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| implicit1 |
linear implicit eqn in one variable
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| gate3 |
gate opening/closing drives model ODE
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| gate1 |
event models gate opening/closing
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| odedrop |
ODE variable with event-driven discontinuity fudge
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| fibonacci |
event construct for recursive function call
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| gate2 |
ensuring gate openings/closings occur alternately
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| count |
event to count voltages above threshhold
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| jintegral |
calculating integral via java function
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| jreverse |
array reversal via java procedure
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| jmean |
geometric mean via java function
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| reentrant |
F&P reentrant tag for multi-processing support
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| template1 |
simple MML template
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| template3 |
extended template example
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| expdecay |
exponential decay via ODE
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| template2 |
nested template example
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| mfax07 |
mixed mass-balance and fast reactions
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| mfax19 |
recirculating flow with junction
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| mfax06 |
flux-based dimerization
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| mfax10f |
flux-based transport
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| mfax05 |
dimerization with another forced concentration
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| mfax09 |
consumption and production
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| mfax12 |
flow junctions
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| mfax10 |
membrane transport
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| mfax14 |
injection
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| mfax02 |
dimerization
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| mfax17 |
flux-based transport
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| mfax18 |
another flow junction
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| mfax20 |
putting all the pieces together
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| mfax03 |
dimerization with initial conditions
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| mfax15 |
externally controlled injection
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| mfax13 |
recirculating flow
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| mfax01 |
simple MFAX reaction, without units
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| mfax04 |
dimerization with 1 forced concentration
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| mfax11 |
flow source, flow and flow sink
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| mfax16 |
production, reaction with flow
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| deriv3 |
derivative operator applied to complex expression
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| interp1 |
variable interpolation
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| deriv1 |
symbolic derivative
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| hetero |
heterogeneous methods
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| interp6 |
examines linear interpolation accuraccy
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| interp_a05 |
interpolating extern data source
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| startzero |
private variable enforces unchangable parameter
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| rabbit |
using a private variable
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| prop1 |
fma, opd properties
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| inverter |
invert extern voltage
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| summer |
changable input parameters
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| interp2 |
bullet-proof interpolation
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| prop2 |
using double braces for extensive property text
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| square |
private variables vs. input variables
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| opt1 |
Optimization tutorial model
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| sens1 |
Sensitivity analysis tutorial model
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| fgen1 |
function generator tutorial
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| misc_pde4 |
PDE blood-tissue exchange
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| misc6 |
4th order linear forced differential equation
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| misc_pde1 |
PDE blood-tissue exchange
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| misc_pde5 |
PDE blood-tissue exchange
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| misc_pde3 |
PDE blood-tissue exchange
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| misc2 |
Michaelis-Menten transport with non-linear PSg
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| misc_pde2 |
PDE blood-tissue exchange
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| misc3 |
time-varying parameter, Fp, with constant infusion
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| misc4 |
conditional equations for PSg
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Model development and archiving support at
physiome.org provided by the following grants: NIH/NHLBI T15
HL88516-01 Modeling for Heart, Lung and Blood: From Cell to Organ,
4/1/07-3/31/11; NSF BES-0506477 Adaptive Multi-Scale Model Simulation,
8/15/05-7/31/08; NIH/NHLBI R01 HL073598 Core 3: 3D Imaging and Computer
Modeling of the Respiratory Tract, 9/1/04-8/31/09; as well as prior
support from NIH/NCRR P41 RR01243 Simulation Resource in Circulatory Mass
Transport and Exchange, 12/1/1980-11/30/01 and NIH/NIBIB R01 EB001973
JSim: A Simulation Analysis Platform, 3/1/02-2/28/07.
