topact.filtering

Module Contents

Functions

log_fold_change(old, new[, base])
expression_modulo_metadata(count_matrix, header)
filter_genes(count_matrix, header, expr_threshold, ...)
highly_expressed_columns(array[, threshold])
differentially_expressed(array[, threshold])

topact.filtering.log_fold_change(old, new, base=2)

topact.filtering.expression_modulo_metadata(count_matrix, header)

Parameters

• count_matrix (topact.countdata.CountMatrix) –

• header (str) –

Return type

tuple[list[str], Any]

topact.filtering.filter_genes(count_matrix, header, expr_threshold, diff_threshold)

Parameters

• count_matrix (topact.countdata.CountMatrix) –

• header (str) –

• expr_threshold (float) –

• diff_threshold (float) –

Return type

list[str]

topact.filtering.highly_expressed_columns(array, threshold=0.0625 / 500)

topact.filtering.differentially_expressed(array, threshold=0.5)