Assignment method for the new elements of an SCESet object.

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Description

The assayData slot of an SCESet object holds the expression data matrices. This functions makes it convenient to add new transformations of the expression data to the assayData slot.

Usage

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set_exprs(object, name) <- value

## S4 replacement method for signature 'SCESet,ANY,matrix'
set_exprs(object,name)<-value

## S4 replacement method for signature 'SCESet,ANY,'NULL''
set_exprs(object, name) <- value

Arguments

object

a SCESet object.

name

character string giving the name of the slot to which the data matrix is to be assigned (can already exist or not).

value

a numeric or integer matrix matching the dimensions of the other elements of the assayData slot of the SCESet object.

Value

NULL, but adds expression data to the SCESet object

Author(s)

Davis McCarthy

Examples

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data("sc_example_counts")
data("sc_example_cell_info")
example_sceset <- newSCESet(countData = sc_example_counts)
set_exprs(example_sceset, "scaled_counts") <- t(t(counts(example_sceset)) /
colSums(counts(example_sceset)))
get_exprs(example_sceset, "scaled_counts")[1:6, 1:6]

## get rid of scaled counts
set_exprs(example_sceset, "scaled_counts") <- NULL

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