pdf_histograms {nichevol}

Helper function to create PDF files with histograms

Description

Helper function to create PDF files with histograms

Usage

pdf_histograms(env_data, occ_data, y_values, sp_names, variable_name,
               CL_lines, limits, col, output_directory)

Arguments

env_data

list of environmental values in M for all species.

occ_data

list of environmental values in occurrences for all species.

y_values

list of values for the y axis to be used to represent where occurrences are distributed across the environmental values in M.

sp_names

(character) names of the species for which the process will be performed.

variable_name

(character) name of the variable to be plotted.

CL_lines

(numeric) confidence limits to be plotted in the histograms.

limits

numeric matrix containing the actual values for the confidence limits of M.

col

color for lines representing the confidence limits of M.

output_directory

(character) name of the folder in which results will be written.

Value

A PDF file written in the output directory containing all resulting figures.

Examples

# example data
e_data <- list(rnorm(1000, 15, 7), rnorm(800, 20, 6), rnorm(1000, 12, 3))
o_data <- list(sample(seq(5, 29, 0.1), 45), sample(seq(10, 33, 0.1), 40),
               sample(seq(1, 16, 0.1), 50))
for (i in 1:3) {
  names(e_data[[i]]) <- e_data[[i]]
  names(o_data[[i]]) <- o_data[[i]]
}
y_val <- list(rep(3, length(o_data)), rep(4, length(o_data)),
              rep(2, length(o_data)))
s_names <- c("sp1", "sp2", "sp3")
lims <- rbind(c(3.5, 26.47), c(10.83, 29.66), c(6.92, 16.91))

tmpd <- file.path(tempdir(), "Hist_to_check") # temporal directory
dir.create(tmpd)

# the running (before running, create output_directory in current directory)
bins <- pdf_histograms(env_data = e_data, occ_data = o_data, y_values = y_val,
                       sp_names = s_names, variable_name = "Temperature",
                       CL_lines = 95, limits = lims, col = "green",
                       output_directory = tmpd)