pca: PCA PCoa NMDS

In yanpd01/yyeasy: Easy Use R

PCA PCoa NMDS

Description

Plot the PCA PCoa NMDS.

Usage

pca_plot(
  df,
  group,
  scale = FALSE,
  axis = c(1, 2),
  label = TRUE,
  legend = FALSE,
  point_size = 2,
  font = "sans",
  font_size = 10
)

pcoa_plot(
  dist,
  group,
  axis = c(1, 2),
  label = TRUE,
  legend = FALSE,
  point_size = 2,
  font = "sans",
  font_size = 10,
  ...
)

nmds_plot(
  dist,
  group,
  label = TRUE,
  legend = FALSE,
  point_size = 2,
  font = "sans",
  font_size = 10,
  ...
)

Arguments

df	df
group	group
scale	TRUE of FALSE. Scale species to unit variance (like correlations).
axis	select the axis to plot
label	TRUE of FALSE. Whether to draw a label
legend	TRUE of FALSE. Whether to draw a legend
point_size	point size
font	sans = Arial, serif = Times New Roman
font_size	font size
dist	dist.
...	Other params from ?ape::pcoa and ?vegan::metaMDS

Examples

data(its)
otu_t <- t(its)
pca_plot(otu_t)
bray_dist <- vegan::vegdist(otu_t)
pcoa_plot(bray_dist)
nmds_plot(bray_dist)

yanpd01/yyeasy documentation built on Dec. 1, 2022, 10:58 p.m.