computeSizeFactors: computeSizeFactors

Description Usage Arguments Value Author(s) Examples

View source: R/sf.R

Description

The function computes the size factors for given factor groups based on the DESeq2 package.

Usage

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computeSizeFactors(ggd, factorGroups = NULL)

Arguments

ggd

A GenoGAMDataSet object.

factorGroups

A list of grouped IDs (same as the colnames of the GenoGAMDataSet object). Each element of the list represents a group of samples within which size factors are computed. If NULL all samples are regarded to belong to one group.

Value

A GenoGAMDataSet object, where the sizeFactors slot is updated.

Author(s)

Georg Stricker [email protected]

Examples

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ggd <- makeTestGenoGAMDataSet()
ggd <- computeSizeFactors(ggd)
sizeFactors(ggd)
groups <- list(c("wt_1", "wt_2"), c("mutant_1", "mutant_2"))
ggd <- computeSizeFactors(ggd, factorGroups = groups)
sizeFactors(ggd)

GenoGAM documentation built on Nov. 2, 2018, 6:01 p.m.