omu (version 1.1.2)

plot_rf_PCA: plot_rf_PCA

Description

PCA plot of the proximity matrix from a random forest classification model

Usage

plot_rf_PCA(rf_list, color, size, ellipse = FALSE, label = FALSE)

Arguments

rf_list

The output from the random_forest function. This only works on classification models.

color

A grouping factor. Use the one that was the LHS of your model parameter in the random_forest funciton

size

The number for point size in the plot

ellipse

TRUE or FALSE. Whether to plot with confidence interval ellipses or not.

label

TRUE or FALSE. Whether to include point labels or not.

Examples

rf_list <- random_forest(c57_nos2KO_mouse_countDF,c57_nos2KO_mouse_metadata,
Treatment ~.,c(60,40),500)
plot_rf_PCA(rf_list = rf_list, color = "Treatment", size = 1.5)