tmm: Trimmed mean of M-values

In hbc/bcbioRNASeq: Bcbio RNA-Seq

Trimmed mean of M-values

Description

TMM normalization is recommended for RNA-seq data generally when the majority of genes are not differentially expressed.

Usage

tmm(object, ...)

## S4 method for signature 'matrix'
tmm(object)

## S4 method for signature 'SummarizedExperiment'
tmm(object)

Arguments

object	Object.
...	Additional arguments.

Value

matrix.

Note

Updated 2020-01-20.

Author(s)

Michael Steinbaugh

References

Robinson and Oshlack (2010).

See Also

• edgeR::calcNormFactors().

• edgeR::cpm().

Examples

## bcbioRNASeq ====
data(bcb)
x <- tmm(bcb)
summary(x)

hbc/bcbioRNASeq documentation built on Sept. 17, 2024, 5:47 a.m.