23320c8733b232b72606dbcc7f79a0d51d3fcc39,scanpy/preprocessing/_deprecated/highly_variable_genes.py,,filter_genes_cv_deprecated,#Any#Any#Any#,200

Before Change

    if issparse(X):
        raise ValueError("Not defined for sparse input. See `filter_genes_dispersion`.")
    mean_filter = np.mean(X, axis=0) > Ecutoff
    var_filter = np.std(X, axis=0) / (np.mean(X, axis=0) + .0001) > cvFilter
    gene_subset = np.nonzero(np.all([mean_filter, var_filter], axis=0))[0]
    return gene_subset


def filter_genes_fano_deprecated(X, Ecutoff, Vcutoff):
    Filter genes by fano factor and mean.

After Change

def filter_genes_cv_deprecated(X, Ecutoff, cvFilter):
     Filter genes by coefficient of variance and mean.
    return _filter_genes(X, Ecutoff, cvFilter, np.std)


def filter_genes_fano_deprecated(X, Ecutoff, Vcutoff):
    Filter genes by fano factor and mean.

Instances