biplot {autonomics}R Documentation

Biplot

Description

Biplot

Usage

biplot(
  object,
  x = pca1,
  y = pca2,
  color = NULL,
  group = NULL,
  label = NULL,
  feature_label = feature_name,
  ...,
  fixed = list(shape = 15, size = 3),
  nloadings = 0
)

plot_biplot(...)

Arguments

object

SummarizedExperiment

x

pca1, etc.

y

pca2, etc.

color

svar mapped to color (symbol)

group

svar mapped to group

label

svar mapped to label (symbol)

feature_label

fvar mapped to (loadings) label

...

additional svars mapped to aesthetics

fixed

fixed plot aesthetics

nloadings

number of loadings per half-axis to plot

Value

ggplot object

Examples

require(magrittr)
file <- download_data('atkin18.metabolon.xlsx')
object <- read_metabolon(file, plot = FALSE)
object %<>% pca(ndim=4)
biplot(object)
biplot(object, color=SUB, group=SUB)
biplot(object, color=SUB, nloadings=1)
biplot(object, pca3, pca4, color=SUB, nloadings=1)

[Package autonomics version 1.1.7 Index]