makeSignMatrixDWLS#
Last Updated: Sep 07, 2023
Description#
Function to convert a matrix within a Giotto object into a format that
can be used with runDWLSDeconv
for deconvolution. A vector of cell
types for parameter cell_type_vector
can be created from the cell
metadata (pDataDT
).
Usage#
makeSignMatrixDWLS(
gobject,
spat_unit = NULL,
feat_type = NULL,
expression_values = c("normalized", "scaled", "custom"),
reverse_log = TRUE,
log_base = 2,
sign_gene,
cell_type_vector,
cell_type = NULL
)
Arguments#
|
Giotto object of single cell |
|
spatial unit |
|
feature type to use |
|
expression values to use |
|
reverse a log-normalized expression matrix |
|
the logarithm base (default = 2) |
|
all of DE genes (signature) |
|
vector with cell types (length = ncol(matrix)) |
|
deprecated, use
|
Value#
matrix
See Also#
runDWLSDeconv