Table 2. Primary ISMA parameters.
| Parameter | Description | Default value | Range used |
| wedgeArea | W: target area of unpolarized cells and ideal wedge area for polarized cells | 82 grid points | 30-150 |
| lambdaArea | Multiplier controls how quickly cells change size to reach their individual target areas | 5 grid points | 0.5-20 |
| stableTargetArea | Target area of stabilized cells | 48 grid points | 30-150 |
| cellCycle | Used to calculate cycleCounter, the number of simulation cycles before a cell divides | 70 simulation cycles | 20-100 |
| lambdaPerim | Multiplier controlling how quickly cells change size to reach their target perimeter | 2.5 | 0.5-10 |
| polarDelay | Used to calculate polarCounter, the number of simulation cycles elapsing before an unpolarized cell polarizes | 42 simulation cycles | 0-400 |
| shiftDelay | In the TS ISMA, used to calculate shiftCounter, the number of simulation cycles elapsing before a polarized cell stabilizes | 140,000 simulation cycles | 0-300 |
| doublingArea | When divided by 2, the minimal area a cell must have to divide | 41 grid points | 20-100 |
| divisionReg | How the axis of division is calculated | 1 | 0, 1, 2, 3 |
| multiplier | Used to calculate target perimeter of cells | 0.6 | 0-1 |
| lumenGrowthRate | Multiplier controlling rate of lumen expansion | 0.003 | 0-1 |
| deathRateLumen | Likelihood of cells to die when not touching matrix | 0.02 | 0-1 |
| deathRateEpi | Likelihood of cells to die when touching matrix | 0.0004 | 0-1 |
| clusterProb | Probability initial two cells will set cycleCounter to zero at simulation cycle 1 | 0.8 | 0-1 |
| lgrSubtract | Multiplied by cell stretch to reduce lumen expansion | 27 | 0-300 |
| dyingShrinkRate | Amount subtracted from target area of dying cells each simulation cycle | 9 grid points | 0-100 |
| stableRatio | Critical lumen size (multiplied by 1000) at which cells will stabilize | 0.5 grid points | 0.1-1 |
| stableCycleDelay | (1 – x) = probability a stabilized cell will decrement cycleCounter | 0.85 | 0-1 |
Parameters critical to the operation of the ISMA are listed along with descriptions, default value used for simulation, and the range of values explored. To switch between the LS ISMA and the TS ISMA the values of shiftDelay and stableRatio are changed from 140,000 and 0.5 to 200 and 1000. All units are relational (e.g., grid points instead of µM, simulation cycles instead of hours).