get_habitat_suitability: Get habitat suitability

In MirzaCengic/Amphibians:

Description

Pass IUCN habitat classification preferences, and habitat classification matrix, and the function will return a dataframe that contains information whether the specific habitat is suitable or unsuitable. Currently the function is intended for use in the amphibians project, and some options that a general user might want to change are hardcoded.

Usage

get_habitat_suitability(species_habitat, conversion_matrix, species_name)

Arguments

species_habitat	Test.
conversion_matrix	Test.
species_name	Test.

Details

Use rredlist::rl_habitats() function to retrieve species habitat preference data. Currently only IUCN -> ESA CCI land cover conversion matrix is supported.

Value

dataframe

Examples

None.

library(rredlist)
library(Rahat)
library(tidyverse)

habitat_conversion_matrix <- "Projects/Amphibians/Documents/Notes/Habitat_suitability/Habitats_conversion.csv" %>%
milkunize2() %>%
read_csv() %>%
mutate(IUCN_code = as.character(IUCN))

my_sp <- "Salamandra salamandra"
# Get IUCN species habitat data preferences
# Originally stored in individual csv's, here everything is stored in one rds file
species_habitat_data <- "Projects/Amphibians/data/IUCN_habitat_data/Species_habitat_data.rds" %>%
  milkunize2() %>%
read_rds()

sp_data <- species_habitat_data %>%
filter(Species == my_sp)

habitat_data <- rl_habitats(my_sp)$results
get_habitat_suitability(species_habitat = sp_data,
conversion_matrix = habitat_conversion_matrix, species_name = my_sp)

MirzaCengic/Amphibians documentation built on May 3, 2019, 3:38 p.m.