anota2seqGetContrasts: Accessor for the 'contrasts' slot of an Anota2seqDataSet...

In ChrOertlin/anota2seq: Generally applicable transcriptome-wide analysis of translational efficiency using anota2seq

Description

Retrieve from an Anota2seqDataSet the contrast matrix that is used in the analysis

Usage

anota2seqGetContrasts(object)

## S4 method for signature 'Anota2seqDataSet'
anota2seqGetContrasts(object)

Arguments

object

A Anota2seqDataSet.

Value

A matrix containing information about the analyzed contrasts to be used for the analysis.

See Also

Anota2seqDataSet-class

Examples

data(anota2seq_data)
# Initialize Anota2seqDataSet
Anota2seqDataSet <- anota2seqDataSetFromMatrix(
    dataP = anota2seq_data_P[1:100,],
    dataT = anota2seq_data_T[1:100,],
    phenoVec = anota2seq_pheno_vec,
    dataType = "RNAseq",
    normalize = TRUE)
# Run analysis of differential translation
Anota2seqDataSet <- anota2seqAnalyze(Anota2seqDataSet, 
                                     analysis = "translation")
contr <- anota2seqGetContrasts(Anota2seqDataSet)
contr
#           treatment
# ctrl             -1
# treatment         1

ChrOertlin/anota2seq documentation built on Aug. 4, 2021, 2:17 p.m.