Get the "cultivar/pathogen genotype" compatibility matrix.

Build the matrix indicating if infection is possible at the beginning of the season for every combination of cultivar (rows) and pathogen genotype (columns).

getMatrixCultivarPatho(params)

Arguments

params

a LandsepiParams object.

Value

an interaction matrix composed of 0 and 1 values.

Details

For each cultivar, there is either possibility of infection by the pathogen genotype (value of 1), or complete protection (value of 0).

Examples

if (FALSE) {
simul_params <- createSimulParams()
gene1 <- loadGene(name = "MG 1", type = "majorGene")
gene2 <- loadGene(name = "MG 2", type = "majorGene")
genes <- data.frame(rbind(gene1, gene2), stringsAsFactors = FALSE)
simul_params <- setGenes(simul_params, genes)
cultivar1 <- loadCultivar(name = "Susceptible", type = "growingHost")
cultivar2 <- loadCultivar(name = "monoResistant1", type = "growingHost")
cultivar3 <- loadCultivar(name = "monoResistant2", type = "growingHost")
cultivar4 <- loadCultivar(name = "Pyramid", type = "growingHost")
cultivars <- data.frame(rbind(cultivar1, cultivar2, cultivar3, cultivar4)
, stringsAsFactors = FALSE)
simul_params <- setCultivars(simul_params, cultivars)
simul_params <- allocateCultivarGenes(simul_params, "monoResistant1", c("MG 1"))
simul_params <- allocateCultivarGenes(simul_params, "monoResistant2", c("MG 2"))
simul_params <- allocateCultivarGenes(simul_params, "Pyramid", c("MG 1", "MG 2"))
getMatrixCultivarPatho(simul_params)
}