COSIE.downstream_analysis.truncate_gene_expression_smartclip

truncate_gene_expression_smartclip(adata, gene, lower=0, upper=99)[source]

Truncate expression data based on non-zero values to reduce the impact of extreme outliers in visualization.

Parameters

adataAnnData: Input AnnData object.
genestr: Gene name (must be in adata.var_names).
lowerfloat, optional: Lower percentile to truncate. Default is 0.
upperfloat, optional: Upper percentile to truncate. Default is 99.

Returns

AnnData: New AnnData object with truncated expression values in .X.