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QIFEIDKN / STAGATE

Adaptive Graph Attention Auto-encoder for Spatial Domain Identification of Spatial Transcriptomics
MIT License
35 stars 18 forks source link

problem in applying sc.pp.highly_variable_genes(adata, flavor="seurat_v3", n_top_genes=3000) #13

Closed xiao-kong-long closed 1 year ago

xiao-kong-long commented 2 years ago

Any people meet same question? When I running sc.pp.highly_variable_genes(adata, flavor="seurat_v3", n_top_genes=3000),error occurs. image what's amazing is I runned it successfully yesterday, but today, when I rerun it, the error occurs. I don't do any modification!!!

xiao-kong-long commented 2 years ago

there are some related issue in github in https://github.com/scverse/scanpy/issues/2073

QIFEIDKN commented 2 years ago

In a windows environment, I solved this error by install the "scikit-misc" package by https://www.lfd.uci.edu/~gohlke/pythonlibs/#scikit-misc.