r-panero

highly_variable_genes AssertionError: Don’t call _normalize_index with non-categorical/string names

9

Hi, I am using anndata 0.6.21 and scanpy 1.4.3 I executed this code: ``` sc.pp.highly_variable_genes(adata, min_mean=0.0001, max_mean=3, min_disp=0.5) sc.pl.highly_variable_genes(adata) adata = adata[:, adata.var['highly_variable']] ``` and I got this error: `AssertionError:...

Different numbers of common.genes using the same reference and de.n

1

Hello, If I understood it correctly SingleR uses the union of the de.n genes among the pairwise comparisons of the reference labels. I tried to run SingleR using different test...