plot_freqPatho: Plotting pathotype frequencies

In landsepi: Landscape Epidemiology and Evolution

Plotting pathotype frequencies

Description

Plots in a .tiff file the dynamics of pathotype frequencies with respect to pathogen adaptation to a specific resistance gene.

Usage

plot_freqPatho(
  name_gene,
  Nlevels_aggressiveness,
  I_aggrProp,
  nTS,
  Nyears,
  nTSpY
)

Arguments

name_gene	a string specifying the name of the gene under investigation
Nlevels_aggressiveness	number of pathotypes with respect to the gene under investigation
I_aggrProp	a matrix giving the frequency of every pathotype (rows) for every time-step (columns)
nTS	number of simulated time-steps
Nyears	number of simulated cropping seasons
nTSpY	number of time-steps per cropping season

Examples

## Not run: 
freqMatrix <- matrix(0, nrow = 2, ncol = 100)
freqMatrix[2, 26:100] <- (26:100) / 100
freqMatrix[1, ] <- 1 - freqMatrix[2, ]
plot_freqPatho(
  index_gene = 1,
  Nlevels_aggressiveness = 2,
  freqMatrix,
  nTS = 100,
  Nyears = 10,
  nTSpY = 10
)

## End(Not run)

landsepi documentation built on July 26, 2023, 5:36 p.m.