Description Usage Arguments Examples
Groups the points with the clusters given by k-means in a 2D PCA scores plot.
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dataset |
list representing the dataset from a metabolomics experiment. |
pca.result |
prcomp object with the PCA results. |
num.clusters |
number of clusters of k-means. |
pcas |
vector with the principal components to be plotted. |
kmeans.result |
result from k-means. If null k-means is performed in the function. |
labels |
boolean value indicating if the samples' labels will be shown. |
ellipses |
boolean value that indicates if an ellipse will be drawn on each group of the metadata's variable. Ellipses will not be drawn if bw=TRUE. |
bw |
if TRUE, it will be displayed a black and white plot. It defaults to FALSE. |
leg.pos |
legend position. |
xlim |
vector with two positions with the x-axis limits. |
ylim |
vector with two positions with the y-axis limits. |
1 2 3 4 5 | ## Example of a 2D PCA k-means plot
library(specmine.datasets)
data(cachexia)
pca.result = pca_analysis_dataset(cachexia)
pca_kmeans_plot2D(cachexia, pca.result, num.clusters = 3, pcas = c(1,2))
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