dot_plot: Dot plots of mean Vortex parameters

In carlopacioni/vortexR: Post Vortex Simulation Analysis

Dot plots of mean Vortex parameters

Description

dot_plot generates dot plots of mean parameter values for each population (row) at each year value requested with 'yrs' (columns). Bars represent standard deviation.

Usage

dot_plot(
  data,
  project,
  scenario,
  yrs = c(1, 2),
  params = c("PExtinct", "Nextant", "Het", "Nalleles"),
  setcolour = "scen.name",
  plotpops = c("all"),
  save2disk = TRUE,
  dir_out = "Plots"
)

Arguments

data	A df from collate_dat
project	Vortex project name (used to name the output)
scenario	Vortex scenario name (used to name the output)
yrs	The years to be included in the plot
params	Vortex parameters to be plotted, default: c('PExtinct', 'Nextant', 'Het', 'Nalleles')
setcolour	Variable to be used to set colours of data, default: scen.name
plotpops	The populations to be included in the plot, default: 'all'
save2disk	Whether to save the output to disk, default: TRUE
dir_out	The local path to store the output. Default: Plots

Details

Plots are ggplot objects. When save2disk=TRUE these are saved as .rda and .pdf files

yrs can be a numeric vector of length >= 1 (e.g. yrs=c(50,100)). Each point in time will be plotted in different columns.

If a continuous variable is passed to setcolour, a continuous gradient of colour will be assigned to the marker (e.g. for example, a scale from blue to black). If a sharp change of colours between different values of a continuous variable is desired, it has to be converted into a factor.

Value

Dot plots of mean parameter values with standard deviation

Examples

# Using Pacioni et al. example data. See ?pac.clas for more details.
data(pac.clas)
dot <- dot_plot(data=pac.clas, project='Pacioni_et_al', scenario='ST_Classic',
               yrs=c(80, 120),
               params=c('PExtinct', 'Nextant', 'Het', 'Nalleles'),
               save2disk=FALSE)

carlopacioni/vortexR documentation built on May 6, 2022, 12:07 p.m.