Estimating Cell Type Proportions From Single Cell Data — bseqsc_proportions • bseqsc

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Estimating Cell Type Proportions From Single Cell Data

bseqsc_proportions(x, reference = NULL, log = NULL, ..., verbose = TRUE)

Arguments

x: Expression data from heterogenous samples
reference: Bisis matrix of reference cell type expression profiles. If NULL then a built-in reference for pancreatic islet cell sub-population is used (data PancreasIslet).
log: logical that indicates if the data x is in in log-scale. If NULL, then log scale is inferred by xbioc::is_logscale.
...: other arguments passed to CIBERSORT.
verbose: logical that toggles log messages.

Value

a list with elements:

coef: matrix of estimated proportions (cell type x samples)
stats: statistics computed by CIBERSORT