scgenome.pp.filter_cells

scgenome.pp.filter_cells(adata, filters=('filter_quality', 'filter_reads', 'filter_copy_state_diff', 'filter_is_s_phase'), inplace=False)

Filter poor quality cells based on the filters provided.

Parameters:

• adata (AnnData) – AnnData to preform operation with

• filters (list, optional) – Filters to apply. Keeps cells where filters are true, by default _default_filters

• inplace – Whether to modify passed in AnnData. If False, returns new AnnData.

Returns:

filtered copy number data

Return type:

AnnData