Plot

Plots several traces from MGDrivE, assuming each set is another repetition from the same experiment.
Given the readDir, this function assumes the follow file structure:

• readDir

  • repetition 1

    • patch 1

    • patch 2

    • patch 3

  • repetition 2

    • patch 1

    • patch 2

    • patch 3

  • repetition 3

  • repetition 4

  • ...

plotMGDrivEMult(readDir, whichPatches = NULL, totalPop = FALSE,
                       nonZeroGen = FALSE, lwd = 0.75, alpha = 0.75)

Arguments

readDir	Directory to find repetition folders in
whichPatches	Vector of patches to plot, must be less than 15. Default is NULL if less than 15 patches
totalPop	Boolean, to plot the total population or not. Default is FALSE
nonZeroGen	Boolean, to plot genotypes that are always zero in simulation
lwd	Double, specify the line width for plotting
alpha	Double, specify the opacity for plotting

Details

This function plots output from one run or one set of runs after being analyzed. Setting totalPop to FALSE keeps it from plotting the total population. NonZeroGen accounts for genotypes that could exist, but are not created in the simulation. Default is FALSE, as this is easier to read on a plot.

Examples

# NOT RUN {
# Requires the user to have run MGDrivE, logically stochastic, analyzed
#  the data, and stored it in the directory shown below.
# See vignette for complete example

# Folder where single run is stored
fPath <- "path/to/data/containing/folder"

# plot output to see effect
plotMGDrivEMult(readDir=fPath,totalPop = TRUE,lwd=3.5,alpha=1)
# }