check if select norm method is an available option

check if select norm method is an available option

Usage

check_norm(vesalius_assay, norm_method, method = NULL, verbose = TRUE)

Arguments

vesalius_assay

a vesalius_assay

norm_method

string - selected normalisation parsed by user

method

DEG method

verbose

logical if progress message should be ouputed

Value

count matrix

Details

Here we check if the normalisation method has been computed in the count slot. We also check if this is used in the context of differential gene expression analysis. DESeq and edgeR require raw counts so if the user parses a valid norm method but is running DEG with one those methods, we ignore request and parse raw count instead.