ggpca_3d {ggfacto}

Interactive 3D Plot for Principal Component Analyses (plotly::)

Description

Interactive 3D Plot for Principal Component Analyses (plotly::)

Usage

ggpca_3d(
  res.pca,
  axes = c(1, 2, 3),
  princ_axes_print = -3:3,
  base_axe_n_breaks = 10,
  ind.size = 4,
  ind_name.size = 3,
  title,
  center = TRUE,
  var_names_on = "var",
  base_zoom = 1,
  remove_buttons = FALSE,
  cone_size = 0.33,
  view = "All",
  type = c("var", "ind", "main_plan", "projections"),
  camera_view,
  aspectratio_from_eig = FALSE,
  always_make_ind_tooltips = FALSE,
  var_color = "#4D4D4D",
  max_ind = 500,
  max_ind_seed
)

Arguments

res.pca

The result of FactoMineR::PCA.

axes

The axes to print, as a numeric vector of length 3 (or 2).

princ_axes_print

The breaks of the principal axes.

base_axe_n_breaks

The number of breaks in initial variables axes.

ind.size

The size of the points of individuals.

ind_name.size

The size of the names of individuals.

title

Plot title.

center

By default the plot is centered on the central point. Set to 'FALSE' to center on the origin of all variables (zero coordinates).

var_names_on

By default '"var"' the names of variables are drawn upon the initial axes. Set to '"cor"' to draw them upon correlation vectors instead.

base_zoom

The base level of zoom.

remove_buttons

Set to TRUE to remove buttons to change view.

cone_size

The size of the conic arrow at the end of each axe.

view

The starting point of view (in 3D) :

• "Plane 1-2" : Axes 1 and 2.

• "Plane 1-3" : Axes 1 and 3.

• "Plane 2-3" : Axes 2 and 3.

• "All" : A 3D perspective with Axes 1, 2, 3.

type

Which elements of the graph to print, among : #'

• "var" : initial variables axes, with breaks

• "cor" : normalized correlation vectors (length = 1)

• "cor_sphere" : a 3D sphere of standard deviation 1

• "ind" : points of individuals

• "ind_name" : names of individuals

• "main_plan" : the plan 1-2.

• "projections" : projections of mean point on initial variables

• "V" : vectors of the V transition matrix

• "vs" : vectors of the matrix of singular values

camera_view

Possibility to add a (replace 'view')

aspectratio_from_eig

Set to 'TRUE' to modify axes length based on eigenvalues.

always_make_ind_tooltips

Set to 'TRUE' to add interactive toolips for individuals.

var_color

The color of the initial variables/dimensions

max_ind

The maximun number of individuals to print.

max_ind_seed

The random seed used to sample individuals.

Value

A plotly html interactive 2d or 3d graph.

Examples

data(mtcars, package = "datasets")
mtcars <- mtcars[1:7] |> dplyr::rename(weight = wt)
res.pca <- FactoMineR::PCA(mtcars, graph = FALSE)

# Variables and individuals
ggpca_3d(res.pca)

# Circle of correlation 3D
ggpca_3d(res.pca, type = c("cor", "cor_sphere"),
         var_names_on = "cor", base_zoom = 0.6,
         princ_axes_print = -1:1, view = "All"
)