RunUMAP on graph - Seurat 4.0.0

[flde]

Dear all,

many thanks for your great work!

I want to use a graph object for RunUMAP (Seurat 4.0.0, pip install umap-learn==0.4.6 through Anaconda on windows 10). I can run RunUMAP(so, dims = 1:30, umap.method = "umap-learn") but RundUMAP(so, graph = "int_sct_graph", umap.method = "umap-learn") does not work.

The following arguments are not used: reduction.model, return.model, n.neighbors, set.op.mix.ratio, local.connectivity, angular.rp.forestError in py_call_impl(callable, dots$args, dots$keywords) :
TypeError: simplicial_set_embedding() missing 3 required positional arguments: 'densmap', 'densmap_kwds', and 'output_dens'

Initially I tried running UMAP with "uwot-learn" on the graph but that fails with a reference to use "umap-learn" (I thought "uwot-learn" will pick up all functions of "umap-learn"?).

Can I use "uwot-learn" at all to run UMAP on graph or do I need "umap-learn" for that?

Best,
Flo