biosurvey (version 0.1.1)

plot_SAC: Plotting lists of species accumulation curves

Description

Creates species accumulation curve plots (one or multiple panels) from information contained in lists obtained with the function selected_sites_SAC.

Usage

plot_SAC(SAC_selected_sites, col_mean = "blue", col_CI = "lightblue",
         alpha_mean = 0.7, alpha_CI = 0.2, xlab = "Number of sites",
         ylab = "Species", line_for_multiple = TRUE, main = NULL, ...)

Arguments

SAC_selected_sites

nested list of "specaccum" objects obtained with function selected_sites_SAC.

col_mean

(character) color for mean value of curve. Default = "blue".

col_CI

(character) color for confidence interval region for the curve. Default = "lightblue".

alpha_mean

(numeric) alpha level for line representing the mean, values from 0 to 1. Default = 0.7. Values close to 0 increase transparency.

alpha_CI

(numeric) alpha level for the region representing the confidence interval. Default = 0.2.

xlab

(character) label for x-axis of plot. Default = "Number of sites".

ylab

(character) label for y-axis of plot. Default = "Species".

line_for_multiple

(logical) whether to plot SACs only as lines when multiple objects are in one or more of the internal lists in SAC_selected_sites. Default = TRUE.

main

(character) title or titles for plots. The default, NULL, adds titles according to names of elements in SAC_selected_sites.

...

other arguments to be passed to plot method for objects of class "specaccum".

Value

A plot of "specaccum" objects. Multiple panels will be plotted if SAC_selected_sites list contains more than one element.

Examples

# NOT RUN {
# Data
data("b_pam", package = "biosurvey")
data("m_selection", package = "biosurvey")

# Subsetting base PAM according to selections
sub_pam_all <- subset_PAM(b_pam, m_selection, selection_type = "all")

SACs <- selected_sites_SAC(PAM_subset = sub_pam_all, selection_type = "all")

# Plotting
plot_SAC(SACs)
# }