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Published 20 hours ago • verified publisher icon delemottelab

Replace t-SNE with UMAP as "drop-in replacement"

Open picodase opened this issue 5 years ago • 2 comments

McInnes et al. suggest using UMAP can speed up some calculations, and is more interpretable than t-SNE. https://pypi.org/project/umap-learn/

picodase avatar Jun 16 '20 17:06 picodase

Thanks for the suggestion! I have yet to read through up on the method, but do you know if there's an easy way to obtain the weight of each feature in a projection?

oliverfleetwood avatar Jun 17 '20 08:06 oliverfleetwood

I'm actually in the same boat; I've read a few papers that have used it, but haven't played with the method myself! As it has been described as a "drop-in" replacement, it probably is possible to do so.

picodase avatar Jun 23 '20 16:06 picodase