Man pages for landsepi
Landscape Epidemiology and Evolution

AgriLandLandscape allocation
allocateCroptypeCultivarsAllocate cultivars to one croptype
allocateCultivarGenesAllocate genes to a cultivar
allocateLandscapeCroptypesAllocate croptypes to the landscape
antideriv_verhulstAntiderivative of the Verhulst logistic function
checkCroptypesCheck croptypes
checkCultivarsCheck cultivars
checkCultivarsGenesCheck cultivars genes
checkDispersalHostCheck host dispersal
checkDispersalPathogenCheck pathogen dispersal
checkGenesCheck genes
checkInoculumCheck inoculum
checkLandscapeCheck the landscape
checkOutputsCheck outputs
checkPathogenCheck pathogen
checkSimulParamsCheck simulation parameters
checkTimeCheck time
checkTreatmentCheck treatment
compute_audpc100SCompute AUDPC in a single 100% susceptible field
createSimulParamsCreate a LandsepiParams object.
Cultivars_listCultivars Type list
demo_landsepiPackage demonstration
dispPDispersal matrices for rust fungi of cereal crops.
epid_outputGeneration of epidemiological and economic model outputs
evol_outputGeneration of evolutionary model outputs
initialize-methodsLandsepiParams
invlogitInverse logit function
is.in.01is.in.01
is.positiveis.positive
is.strict.positiveis.strict.positive
is.wholenumberis.wholenumber
landscapeTESTLandscapes
landsepi-packageLandscape Epidemiology and Evolution
LandsepiParamsClass LandsepiParams
loadCroptypesLoad Croptypes
loadCultivarLoad a cultivar
loadDispersalHostLoad a host dispersal matrix
loadDispersalPathogenLoad pathogen dispersal matrices
loadGeneLoad a gene
loadLandscapeLoad a landscape
loadOutputsLoad outputs
loadPathogenLoad pathogen parameters
loadSimulParamsLoad simulation parameters
loadTreatmentLoad treatment parameters
logitLogit function
model_landsepiModel for Landscape Epidemiology & Evolution
multiNAllocation of cultivars
periodic_covPeriodic covariance function
plot_allocationPlotting allocation of croptypes in a landscape
plot_freqPathoPlotting pathotype frequencies
plotlandPlotting the landscape
price_reductionPrice reduction function
print-methodsprint
resetCultivarsGenesReset cultivars genes
runShinyApprunShinyApp
runSimulRun a simulation
saveDeploymentStrategySave landscape and deployment strategy
setCroptypesSet croptypes
setCultivarsSet cultivars
setDispersalHostSet host dispersal
setDispersalPathogenSet pathogen dispersal
setGenesSet genes
setInoculumSet inoculum
setLansdcapeSet the landscape
setOutputsSet outputs
setPathogenSet the pathogen
setReproSexProbSet the vector of probabilities of sexual reproduction
setSeedSet the seed
setSeedValuesetSeedValue
setTimeSet time parameters
setTreatmentSet chemical treatments
show-methodsshow
simul_landsepiSimulation with input parameters as data.frames.
summary-methodssummary
switch_patho_to_aggrSwitch from index of genotype to indices of agressiveness on...
videoGeneration of a video
landsepi documentation built on July 26, 2023, 5:36 p.m.