resultsMatrix: DESeq aggregate results matrix

Description Usage Arguments Value Functions Note Examples

Description

Generate an aggregate matrix of DESeqResults column values per contrast.

Usage

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resultsMatrix(object, ...)

## S4 method for signature 'DESeqAnalysis'
resultsMatrix(
  object,
  value = c("log2FoldChange", "stat", "padj"),
  rowData = FALSE
)

## S4 method for signature 'DESeqAnalysisList'
resultsMatrix(
  object,
  value = c("log2FoldChange", "stat", "padj"),
  rowData = FALSE
)

Arguments

object

DESeqAnalysis.

value

character(1). Value type to return. Corresponds to supported DESeqResults column:

  • log2FoldChange: log2 fold change.
    This will return shrunken LFC values if they are defined.

  • stat: Wald test statistic.

  • padj: BH adjusted P value.

rowData

logical(1). Include row (gene) annotations, bound to the left side of the data frame.

...

Additional arguments.

Value

Functions

Note

Updated 2020-08-19.

Examples

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data(deseq)

## DESeqAnalysis ====
x <- resultsMatrix(deseq)
head(x)

steinbaugh/DESeqAnalysis documentation built on Sept. 25, 2020, 5:21 a.m.