Error running Harmony

Has anyone tried running Harmony?
I specifically tried running the examples in the link below:

But I keep getting errors when running this command (do_umap not found):
pca_umap <- do_umap(pca_embeddings)

I emailed the author (Ilya Korsunsky) a number of times but did not get any response. Any help will be appreciated.


You might benefit from taking a look at our github for single-cell data integration benchmarking. We have some code in there which we use to run Harmony in R. We had a python version before as well, but I’m not sure if it’s still in there.