chromato_env16: Display the multidimensional ecological niche of a species...

In specieschrom: The Species Chromatogram

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)

specieschrom documentation built on Oct. 17, 2022, 5:11 p.m.