hyperGeometricEnrich: hyperGeometricEnrich

In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

hyperGeometricEnrich

Description

Function to calculate gene signature enrichment scores per spatial position using a hypergeometric test.

Usage

hyperGeometricEnrich(...)

Arguments

...

Arguments passed on to runHyperGeometricEnrich gobject Giotto object sign_matrix Matrix of signature genes for each cell type / process expression_values expression values to use reverse_log_scale reverse expression values from log scale logbase log base to use if reverse_log_scale = TRUE top_percentage percentage of cells that will be considered to have gene expression with matrix binarization output_enrichment how to return enrichment output p_value calculate p-values (boolean, default = FALSE) name to give to spatial enrichment results, default = rank return_gobject return giotto object

See Also

runHyperGeometricEnrich

RubD/Giotto documentation built on April 29, 2023, 5:52 p.m.