% Generated by roxygen2: do not edit by hand
 % Please edit documentation in R/QCfunctions.R
 \name{normaliseExprs}
 \alias{normaliseExprs}

 \title{normaliseExprs}

 \usage{

 normaliseExprs(
   sce,
   altExp_name = NULL,
   exprs_value = "counts",

   transform = c("log", "clr", "zi_minMax", "minMax"),

   log_offset = NULL
 )

 }
 \arguments{
 \item{sce}{A \code{SingleCellExperiment} object}
 

 \item{altExp_name}{Name of alternative expression
 that will be used to perform normalisation}

 \item{exprs_value}{A character indicates
 which expression value in assayNames is used.}

 \item{transform}{type of transformation,
 either log or clr (Centered log ratio transform)}

 \item{log_offset}{Numeric scalar specifying the pseudo-count
 to add when log-transforming expression values. Default is 1}

 }

 \value{
 a SingleCellExperiment object
 }

 \description{
 A function that perform normalisation for alternative expression
 }

 \examples{

 data(CITEseq_example, package = "CiteFuse")

 sce_citeseq <- preprocessing(CITEseq_example)
 sce_citeseq <- normaliseExprs(sce = sce_citeseq,
 altExp_name = "ADT",
 transform = "log")
 }