atarashansky

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Example Using Custom and External KNN Graph

For the record, I think the implementation of UMAP in [scanpy](https://github.com/theislab/scanpy) can do this (although initially intended for single-cell data, lol!). You can tell it to layout whatever graph you...

problem in intetpreting the SAMap integration results

1. `neigh_from_keys` actually expects a dictionary of booleans keyed by species ID - sorry the documentation isn't clear. Species where `neigh_from_keys` is `True` use the values defined in `keys` to...

ImportError: cannot import name 'get_cmap' from 'matplotlib.cm'

I'm looking into this now - I am getting the same issue.

ImportError: cannot import name 'get_cmap' from 'matplotlib.cm'

Looks like `matplotlib` 3.9.0 version broke things. Installing to an earlier version (