normaliseExprs {CiteFuse} | R Documentation

## normaliseExprs

### Description

A function that perform normalisation for alternative expression

### Usage

    normaliseExprs(
      sce,
      altExp_name = NULL,
      exprs_value = "counts",
      transform = c("log", "clr", "zi_minMax", "minMax"),
      log_offset = NULL
    )

### Arguments

`sce` | A `SingleCellExperiment` object
`altExp_name` | Name of alternative expression that will be used to perform normalisation
`exprs_value` | A character indicates which expression value in assayNames is used.
`transform` | type of transformation, either log or clr (Centered log ratio transform)
`log_offset` | Numeric scalar specifying the pseudo-count to add when log-transforming expression values. Default is 1

### Value

a SingleCellExperiment object

### Examples

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

[Package CiteFuse version 1.0.0 Index]