Here’s how to create a t-SNE graph in R (this is copied from the help file for Rtsne)…

library("Rtsne")
iris_unique <- unique(iris) # Remove duplicates
iris_matrix <- as.matrix(iris_unique[,1:4])
set.seed(42) # Set a seed if you want reproducible results
tsne_out <- Rtsne(iris_matrix) # Run TSNE
# Show the objects in the 2D tsne representation
plot(tsne_out$Y,col=iris_unique$Species)

2 thoughts on “StatQuest: t-SNE, clearly explained!”

I don’t suppose you could do another video on Locally Linear Embeddings, could you? I realize it’s similar to t-SNE, but it would be nice to have an intuitive yet substantive explanation of the similarities and differences.

That’s a great idea. Someone else has already asked for me to do “isomap” dimension reduction, and Locally-linear embedding is related, so I’ll add it to the to-do list.

I don’t suppose you could do another video on Locally Linear Embeddings, could you? I realize it’s similar to t-SNE, but it would be nice to have an intuitive yet substantive explanation of the similarities and differences.

Great videos, btw!

Thanks, John Strong

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That’s a great idea. Someone else has already asked for me to do “isomap” dimension reduction, and Locally-linear embedding is related, so I’ll add it to the to-do list.

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