Function to calculate gene signature enrichment scores per spatial position using a hypergeometric test.
hyperGeometricEnrich(...)
Arguments passed on to runHyperGeometricEnrich
gobject
Giotto object
spat_unit
spatial unit
feat_type
feature type
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 = hypergeometric
return_gobject
return giotto object
enrichment scores