plot_representation: Create PCA/UMAP plot

In HCGB-IGTP/HCGB.IGTP.DAnalysis: Useful in-house functions for multiple analysis

Create PCA/UMAP plot

Description

This functions creates a PCA or UMAP plot given a vector of names, x and y coordinates. You can additionally colour according to other vector, add title, label the points, set a different variabel to include and additional parameter (size), and create circles aroung groups of row_names provided.

Usage

plot_representation(
  row_names,
  x_given,
  y_given,
  meta_data_col,
  title,
  label_plot = FALSE,
  size = FALSE,
  size_var = NULL,
  max.overlaps_int = 50,
  encircle = FALSE
)

Arguments

row_names	Identifiers for each sample
x_given	Variable to plot in X axis. It should be numeric and included within data_all_given
y_given	Variable to plot in Y axis. It should be numeric and included within data_all_given
meta_data_col	Vector for colouring
title	Title to add to the plot
label_plot	Add labels to the points
size	TRUE/FALSE to include a numeric variable with different size points
size_var	numeric variable with different size points
max.overlaps_int	Number of overlaps for ggrepel
encircle	Wether to include circles aroung groups of row_names provided

HCGB-IGTP/HCGB.IGTP.DAnalysis documentation built on April 13, 2025, 12:03 a.m.