| chromato_env16 {specieschrom} | R Documentation |
Display the multidimensional ecological niche of a species with a species chromatogram.
Description
Display the multidimensional ecological niche of a species as an array of coloured cells (alpha categories by p environmental variables).
Usage
chromato_env16(z, y, alpha, m, k, order_smth)
Arguments
z |
a matrix with n samples by p environmental variables (i.e. the value of each environmental variable in each sample) |
y |
a vector with the abundance of a species in the n samples |
alpha |
an integer corresponding to the number of category along each environmental variable |
m |
an integer corresponding to the lowest number of samples needed in a category in order to have an estimation of the mean abundance |
k |
an integer corresponding to the percentage of samples with the highest abundance use to estimate the mean abundance of a species in a given category |
order_smth |
an integer corresponding the order of the simple moving average applied along each niche dimension |
Value
chr2 a matrix corresponding to the species chromatogram (alpha categories by p environmental variables)
Examples
# Load the example datasets
data("data_abundance")
data("environment")
# Characterise and display the ecological niche of a pseudo-species
# `alpha`=50 categories, `m`=1 sample, `k`=5 and `order_smth`=2
sp_chrom_PS1<-chromato_env16(environment,data_abundance[,1],50,1,5,2)