TABLE 1 .
Main input parameters of Infectio
| Parameter | Type | Default | Description |
|---|---|---|---|
| cells_x | Integer | 5 | Model size defined by the number of the horizontal cells in the hexagonal lattice (y size is computed automatically to maintain the lattice) |
| pauseOnCAIterations | Flag (0 or 1) | 0 | Wait for key stroke or user input after every iteration |
| virus Flags. | Flag (0 or 1) | 0 | Should the images be displayed with or without PSE particles |
| plotImagesWithParts | |||
| virusFlags. | Flag (0 or 1) | 0 | Advection: true, apply flow; false, do not |
| isAdvectionEnabled | |||
| TotalTimeStepsHPI | Integer | 10 | Total time steps for the model to run in hours postinfection |
| virusFlags. | Flag (0 or 1) | 1 | Switches the cell-to-cell spread on and off |
| isSpreadCell2CellLimitedByTime | |||
| virusFlags. | Flag (0 or 1) | 0 | Switches the cell-free spread on and off |
| isCellFreeSpreadEnabled | |||
| initialC2cInfection | Integer | 1 | Number of initially infected cells |
| Sensor | Flag (0 or 1) | 0 | Save all workspace variable at certain hours p.i. during the simulation |
| CellDeathFlag | Flag (0 or 1) | 0 | Allow death of uninfected cells |
| CellLysDistFlag | String | “unif” | Cell lysis probability distribution flag for lytic cell-free spread: unif, norm, exp |
| SavePrticlesPlotFlag | Flag (0 or 1) | 0 | Saves the PSE particle plots |
| virusType | String | “VACV-WR” | Select one of the preset viruses; new presets for viruses with experimentally measured parameters can be definied in capse/src/matlab/+caps/+config/parameters.m and capse/src/matlab/+caps/+config/flags.m |
| PrimaryLysisFlag | Flag (0 or 1) | 0 | Defines whether the initially infected cell lyses to initiate spread |