deprecated {scater}R Documentation

Retrieve a representation of gene expression

Description

Deprecated from scater version 1.3.29.

Deprecated from scater version 1.5.2.

Deprecated from scater version 1.5.2.

Usage

getExprs(object)

toCellDataSet(sce, exprs_values = "exprs")

fromCellDataSet(cds, exprs_values = "tpm", logged = FALSE,
  logExprsOffset = 1)

Arguments

object

An object of type SCESet

sce

An SCESet object

exprs_values

What should exprs(cds) be mapped from in the SCESet? Should be one of "exprs", "tpm", "fpkm", "counts"

cds

A CellDataSet from the monocle package

logged

logical, if exprs_values="exprs", are the expression values already on the log2 scale, or not?

logExprsOffset

numeric, value to add prior to log-transformation.

Value

A matrix representation of expression values.

An object of class CellDataSet

An object of class SCESet

Examples

## Not run: "Deprecated"
## Not run: "Deprecated"

[Package scater version 1.6.3 Index]