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A workaround is to build the neighbor graph outside of
umap2and pass the results to thenn_methodparameter.Thank you for the advice. I now use
findKNN()fromBiocNeighborswith their defaultKmknnParamto find the exact knn and notice that their naming convention islist(index, distance), notlist(idx, dist). Still, I'm glad the documentation states it clearly so it's not bad at all.
Originally posted by @hsuknowledge in #139
Where nn_method allows for nearest neighbor graph list input, index and distance should be allowed.
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