Jonker-Volgenant Algorithm + t-SNE = Super Powers: https://blog.sourced.tech/post/lapjv/

#tsne #visualization

​​Dimensionality reduction for visualizing single-cell data using UMAP

UMAP is an t-SNE replacement for #visualization.

UMAP is being increasingly accepted as a powerful tool for visualizing single cell datasets. This paper compares UMAP to #TSNE

While UMAP is unquestionably better than default t-SNE in preserving global structure, it's worth mentioning that (very recently) it was shown that this limitation of t-SNE appears to be addressable with better parameters/initialization.

Article link: https://www.nature.com/articles/nbt.4314

#TSNE-#CUDA implementation up to 1200x faster Sklearn

Don't waste your time, use #GPU-Accelerated t-SNE

Paper: https://arxiv.org/pdf/1807.11824.pdf
Code: https://github.com/CannyLab/tsne-cuda