resultsTables: Results tables

Description Usage Arguments Details Value Tables Note Examples

Description

Results tables

Usage

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## S4 method for signature 'DESeqResults'
resultsTables(object, return = c("tbl_df",
  "DataFrameList"))

## S4 method for signature 'DESeqAnalysis'
resultsTables(object, results, rowData = TRUE,
  counts = TRUE, return = c("tbl_df", "DataFrameList"))

Arguments

object

Object.

return

character(1). Type of data frame to return in the list. Uses match.arg(). Note that DataFrame option will return with row names, whereas tbl_df option will return with "rowname" column.

results

character(1) or integer(1). Name or position of DESeqResults.

rowData

logical(1). Join the row annotations.

counts

logical(1). Join the size-factor adjusted normalized counts.

Details

Generate tables summarizing the differential expression, with subsets for differentially expressed genes (DEGs). DEG tables (i.e. everything except the all table), are arranged by adjusted P value.

Value

list. Named list containing subsets of DESeqResults.

Tables

Note

Do not apply post hoc log fold change cutoffs.

Examples

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data(deseq)

## DESeqAnalysis ====
x <- resultsTables(deseq, results = 1L)
print(x)

steinbaugh/DESeqAnalysis documentation built on March 22, 2019, 5:51 p.m.