rapids_singlecell.pp.filter_genes

rapids_singlecell.pp.filter_genes(adata, *, qc_var='n_cells_by_counts', min_count=None, max_count=None, verbose=True)

Filter genes based on number of cells or counts.

Filters genes, that have greater than a max number of genes or less than a minimum number of a feature in a given var columns. Can so far only be used for numerical columns. You can run this function on ‘n_cells’ or ‘n_counts’ with a previous columns in var.

Parameters:

adata AnnData

AnnData object

qc_var str (default: 'n_cells_by_counts')

column in var with numerical entries to filter against

min_count int (default: None)

Lower bound on number of a given feature to keep gene

max_count int (default: None)

Upper bound on number of a given feature to keep gene

verbose bool (default: True)

Print number of discarded genes

Return type:

None

Returns:

a filtered AnnData object inplace