R: LDA visualization (individual and/or variable factor map(s))...

plot.PLNLDAfit {PLNmodels} | R Documentation

## LDA visualization (individual and/or variable factor map(s)) for a `PLNPCAfit` object

### Description

LDA visualization (individual and/or variable factor map(s)) for a `PLNPCAfit` object

### Usage

    ## S3 method for class 'PLNLDAfit'
    plot(
      x,
      map = c("both", "individual", "variable"),
      nb_axes = min(3, x$rank),
      axes = seq.int(min(2, x$rank)),
      var_cols = "var_colors",
      plot = TRUE,
      main = NULL,
      ...
    )

### Arguments

`x` | an R6 object with class PLNPCAfit
`map` | the type of output for the PCA visualization: either "individual", "variable" or "both". Default is "both".
`nb_axes` | scalar: the number of axes to be considered when map = "both". The default is min(3,rank).
`axes` | numeric, the axes to use for the plot when map = "individual" or "variable". Default it c(1,min(rank))
`var_cols` | a character or factor to define the color associated with the variables. By default, all variables receive the default color of the current palette.
`plot` | logical. Should the plot be displayed or sent back as `ggplot2` object
`main` | character. A title for the single plot (individual or variable factor map). If NULL (the default), an hopefully appropriate title will be used.
`...` | Not used (S3 compatibility).

### Value

displays an individual and/or variable factor maps for the corresponding axes, and/or sends back a `ggplot2` or gtable object

### Examples

    data(trichoptera)
    trichoptera <- prepare_data(trichoptera$Abundance, trichoptera$Covariate)
    myPLNLDA <- PLNLDA(Abundance ~ 1, grouping = Group, data = trichoptera)
    ## Not run:
    plot(myPLNLDA, map = "individual", nb_axes = 2)

    ## End(Not run)

[Package PLNmodels version 0.11.4 Index]