I have to filter cells on basis of gene expression using scanpy. I am using the command
sc.pp.filter_cells(adata, min_genes=0)
But I am getting this error:
File "<stdin>", line 1, in <module> File "/storage/gaurav.ahuja/python2/envs/scenic/lib/python3.6/site-packages/scanpy/preprocessing/_simple.py", line 125, in filter_cells cell_subset, number = materialize_as_ndarray(filter_cells(adata.X, min_counts, min_genes, max_counts, max_genes)) File "/storage/gaurav.ahuja/python2/envs/scenic/lib/python3.6/site-packages/scanpy/preprocessing/_simple.py", line 136, in filter_cells else X > 0, axis=1) TypeError: '>' not supported between instances of 'numpy.ndarray' and 'int'
Before this step, I had just read the expression matrix and made the values unique using var_name_make_unique
Please suggest the solution.
