plot.PLNmixturefit: Mixture visualization of a 'PLNmixturefit' object

In PLNmodels: Poisson Lognormal Models

Mixture visualization of a PLNmixturefit object

Description

Represent the result of the clustering either by coloring the individual in a two-dimension PCA factor map, or by representing the expected matrix of count reorder according to the clustering.

Usage

## S3 method for class 'PLNmixturefit'
plot(x, type = c("pca", "matrix"), main = NULL, plot = TRUE, ...)

Arguments

x	an R6 object with class PLNmixturefit
type	character for the type of plot, either "pca", for or "matrix". Default is "pca".
main	character. A title for the plot. If NULL (the default), an hopefully appropriate title will be used.
plot	logical. Should the plot be displayed or sent back as ggplot object
...	Not used (S3 compatibility).

Value

a ggplot graphic

Examples

data(trichoptera)
trichoptera <- prepare_data(trichoptera$Abundance, trichoptera$Covariate)
myPLN <- PLNmixture(Abundance ~ 1 + offset(log(Offset)),
           data = trichoptera, control = PLNmixture_param(smoothing = "none"))  %>% getBestModel()
## Not run: 
plot(myPLN, "pca")
plot(myPLN, "matrix")

## End(Not run)

PLNmodels documentation built on Aug. 24, 2023, 5:11 p.m.