results: Results

Description Usage Arguments Value Extra mode Note Examples

Description

Results

Usage

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results(object, ...)

## S4 method for signature 'DESeqDataSet'
results(object, ...)

## S4 method for signature 'DESeqAnalysis'
results(object, i, extra = FALSE)

Arguments

object

Object.

...

Additional arguments.

i

Indices specifying elements to extract or replace. Indices are numeric or character vectors, empty (missing), or NULL.

For more information:

help(topic = "Extract", package = "base")
extra

logical(1). Include row data (i.e. gene metadata) and normalized counts from the internal DESeqDataSet.

Value

DESeqResults.

Extra mode

Get the DESeqDataSet, and humanize the sample names. Note that we're not calling humanize() here on the DESeqDataSet, because we want to keep the gene identifiers in the row names. Use human-friendly sample names, defined by the sampleName column in colData. We're using this downstream when joining the normalized counts.

Note

Updated 2020-09-21.

Examples

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data(deseq)

## DESeqAnalysis ====
x <- results(deseq, i = 1L)
class(x)
colnames(x)

steinbaugh/DESeqAnalysis documentation built on Oct. 15, 2020, 2:02 a.m.