specieschrom (version 1.0.0)

chromato_env16: 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)

Value

chr2 a matrix corresponding to the species chromatogram (alpha categories by p environmental variables)

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

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)