kNN Classification in ggplot2
How to do kNN Classification in ggplot2 with Plotly.
New to Plotly?
Plotly is a free and open-source graphing library for R. We recommend you read our Getting Started guide for the latest installation or upgrade instructions, then move on to our Plotly Fundamentals tutorials or dive straight in to some Basic Charts tutorials.
ggfortify
supports stats::kmeans
class. You must explicitly pass original data to autoplot
function via data
keyword. Because kmeans object doesn't store original data. The result will be automatically colorized by categorized cluster.
Default clustered scatterplot
library(plotly)
library(ggfortify)
set.seed(1)
p <- autoplot(kmeans(USArrests, 3), data = USArrests)
ggplotly(p)
library(plotly)
library(ggfortify)
p <- autoplot(kmeans(USArrests, 3), data = USArrests, label = TRUE, label.size = 3)
ggplotly(p)
Using cluster
package
{ggfortify
} supports cluster::clara
, cluster::fanny
, cluster::pam
as well as cluster::silhouette
classes. Because these instances should contains original data in its property, there is no need to pass original data explicitly.
library(plotly)
library(ggfortify)
library(cluster)
p <- autoplot(clara(iris[-5], 3))
ggplotly(p)
Plotting cluster converx
Specifying frame = TRUE
in autoplot for stats::kmeans
and cluster::*
draws convex for each cluster.
library(plotly)
library(ggfortify)
library(cluster)
p <- autoplot(fanny(iris[-5], 3), frame = TRUE)
ggplotly(p)
Plotting cluster probability ellipse
If you want probability ellipse, specify whatever supported in ggplot2::stat_ellipse
's type keyword via frame.type
option.
library(plotly)
library(ggfortify)
library(cluster)
p <- autoplot(pam(iris[-5], 3), frame = TRUE, frame.type = 'norm')
ggplotly(p)
Silhouette plot
library(plotly)
library(ggfortify)
library(cluster)
p <- autoplot(silhouette(pam(iris[-5], 3L)))
ggplotly(p)
What About Dash?
Dash for R is an open-source framework for building analytical applications, with no Javascript required, and it is tightly integrated with the Plotly graphing library.
Learn about how to install Dash for R at https://dashr.plot.ly/installation.
Everywhere in this page that you see fig
, you can display the same figure in a Dash for R application by passing it to the figure
argument of the Graph
component from the built-in dashCoreComponents
package like this:
library(plotly)
fig <- plot_ly()
# fig <- fig %>% add_trace( ... )
# fig <- fig %>% layout( ... )
library(dash)
library(dashCoreComponents)
library(dashHtmlComponents)
app <- Dash$new()
app$layout(
htmlDiv(
list(
dccGraph(figure=fig)
)
)
)
app$run_server(debug=TRUE, dev_tools_hot_reload=FALSE)