| landsepi-package | Landscape Epidemiology and Evolution |
| AgriLand | Landscape allocation |
| allocateCroptypeCultivars | Allocate cultivars to one croptype |
| allocateCultivarGenes | Allocate genes to a cultivar |
| allocateLandscapeCroptypes | Allocate croptypes to the landscape |
| checkCroptypes | Check croptypes |
| checkCultivars | Check cultivars |
| checkCultivarsGenes | Check cultivars genes |
| checkDispersalHost | Check host dispersal |
| checkDispersalPathogen | Check pathogen dispersal |
| checkGenes | Check genes |
| checkInoculum | Check inoculum |
| checkLandscape | Check the landscape |
| checkOutputs | Check outputs |
| checkPathogen | Check pathogen |
| checkSimulParams | Check simulation parameters |
| checkTime | Check time |
| createLandscapeGPKG | createLandscapeGPKG |
| createSimulParams | Create a LandsepiParams object. |
| CroptypeBDD2Params | CroptypeBDD2Params |
| CultivarBDD2Params | CultivarBDD2Params |
| CultivarGeneBDD2Params | CultivarGeneBDD2Params |
| demo_landsepi | Package demonstration |
| dispP | Dispersal matrices for rust fungi of cereal crops. |
| dispP_1 | Dispersal matrices for rust fungi of cereal crops. |
| dispP_2 | Dispersal matrices for rust fungi of cereal crops. |
| dispP_3 | Dispersal matrices for rust fungi of cereal crops. |
| dispP_4 | Dispersal matrices for rust fungi of cereal crops. |
| dispP_5 | Dispersal matrices for rust fungi of cereal crops. |
| epid_output | Generation of epidemiological and economic model outputs |
| evol_output | Generation of evolutionary model outputs |
| GeneBDD2Params | GeneBDD2Params |
| getGPKGArea | getGPKGArea |
| getGPKGCroptypes | getGPKGCroptypes |
| getGPKGCroptypesRaw | getGPKGCroptypesRaw |
| getGPKGCultivars | getGPKGCultivars |
| getGPKGCultivarsGenes | getGPKGCultivarsGenes |
| getGPKGGeneIDForCultivar | getGPKGGeneIDForCultivar |
| getGPKGGenes | getGPKGGenes |
| getGPKGRotation | getGPKGRotation |
| GPKGAddInputData | GPKGAddInputData |
| GPKGAddTables | GPKGAddTables |
| initialize-method | LandsepiParams |
| invlogit | Inverse logit function |
| is.in.01 | is.in.01 |
| is.positive | is.positive |
| is.strict.positive | is.strict.positive |
| is.wholenumber | is.wholenumber |
| landscapeTEST | Landscapes |
| landscapeTEST1 | Landscapes |
| landscapeTEST2 | Landscapes |
| landscapeTEST3 | Landscapes |
| landscapeTEST4 | Landscapes |
| landscapeTEST5 | Landscapes |
| landsepi | Landscape Epidemiology and Evolution |
| LandsepiParams | Class LandsepiParams |
| LandsepiParams-class | Class LandsepiParams |
| loadCroptypes | Load Croptypes |
| loadCultivar | Load a cultivar |
| loadDispersalHost | Load a host dispersal matrix |
| loadDispersalPathogen | Load a pathogen dispersal matrix |
| loadGene | Load a gene |
| loadLandscape | Load a landscape |
| loadOutputs | Load outputs |
| loadPathogen | Load pathogen parameters |
| loadSimulParams | Load simulation parameters |
| logit | Logit function |
| model_landsepi | Model for Landscape Epidemiology & Evolution |
| multiN | Allocation of cultivars |
| params2CroptypeBDD | params2CroptypeBDD |
| params2CultivarBDD | params2CultivarBDD |
| params2GeneBDD | params2GeneBDD |
| params2GeneListBDD | params2GeneListBDD |
| periodic_cov | Periodic covariance function |
| plotland | Plotting the landscape |
| plot_allocation | Plotting allocation of croptypes in a landscape |
| plot_freqPatho | Plotting pathotype frequencies |
| print-method |
| resetCultivarsGenes | Reset cultivars genes |
| runShinyApp | runShinyApp |
| runSimul | Run a simulation |
| saveDeploymentStrategy | Save landscape and deployment strategy |
| setCroptypes | Set croptypes |
| setCultivars | Set cultivars |
| setDispersalHost | Set host dispersal |
| setDispersalPathogen | Set pathogen dispersal |
| setGenes | Set genes |
| setInoculum | Set inoculum |
| setLandscape | Set the landscape |
| setLansdcape | Set the landscape |
| setOutputs | Set outputs |
| setPathogen | Set the pathogen |
| setSeed | Set the seed |
| setSeedValue | setSeedValue |
| setTime | Set time parameters |
| show | show |
| show-method | show |
| simul_landsepi | Simulation with input parameters as data.frames. |
| summary | summary |
| summary-method | summary |
| switch_patho_to_aggr | Switch from index of genotype to indices of agressiveness on different components |
| video | Generation of a video |
| _PACKAGE | Landscape Epidemiology and Evolution |