add_ass_names

two numeric vectors of <code>length(Fx)</code>.
The first vector contains reference, observed assemblage performances.
The second vector contains assemblage performances
modelled by components clustering.

Fx, Fy

an integer vector of <code>length(Fx)</code>.
The vector contains the labels of each assemblages.
The labels are only used to plot the assemblage performances
that share a same assembly motif
with a same symbol and color.
If it is omitted, all points are plotted using a same symbol and color.
The default symbol and color is <code>"red circle"</code>.

assMotif

an integer vector of <code>length(Fx)</code>.
It contains the colours specific to each assembly motif
recorded in <code>assMotif</code>.

cols

Plot the name of each assemblage near its performance
on a graph plotted using the functions
<code><a rd-options="" href="/link/plot_prediction_simple?package=functClust&version=0.1.6" data-mini-rdoc="functClust::plot_prediction_simple">plot_prediction_simple</a></code> or
<code><a rd-options="" href="/link/plot_prediction_LOO?package=functClust&version=0.1.6" data-mini-rdoc="functClust::plot_prediction_LOO">plot_prediction_LOO</a></code>.

internal

Cluster together the components that make up an interactive
system on the basis of their functional redundancy
for one or more collective, systemic performances.
Plot the hierarchical tree of component clusters,
the modelled and predicted performances of component assemblages,
and other results associated with a functional clustering.
Test and prioritize the significance of the different components
that make up the interactive system,
of the different assemblages of components that make up the dataset,
and of the different performances observed on the component assemblages.
The method finds application in ecology, for instance,
where the system is an ecosystem, the components are organisms or species,
and the systemic performance is the production of biomass
or the respiration of the ecosystem.
The method is extensively described in
Jaillard B, Deleporte P, Loreau M, Violle C (2018)
"A combinatorial analysis using observational data identifies species
that govern ecosystem functioning"
<doi:10.1371/journal.pone.0201135>.

Beno<c3><ae>t Jaillard

functClust

Functional Clustering of Redundant Components of a System

Philippe Deleporte

Michel Loreau

Cyrille Violle

add_ass_names function

Plot the name of each assemblage near its performance
on a graph plotted using the functions
<code><a rd-options='' href='plot_prediction_simple'>plot_prediction_simple</a></code> or
<code><a rd-options='' href='plot_prediction_LOO'>plot_prediction_LOO</a></code>.

add_ass_names: Add assemblage names on a plot

Description

Usage

Arguments

Value

Details