plotRLExpr: Compute and plot relative log expression (RLE) values of gene...

plotRLExprR Documentation

Compute and plot relative log expression (RLE) values of gene expression data

Description

Compute and plot relative log expression (RLE) values of gene expression data

Usage

plotRLExpr(object, ordannots = c(), ...)

## S4 method for signature 'DGEList'
plotRLExpr(object, ordannots = c(), ...)

## S4 method for signature 'ExpressionSet'
plotRLExpr(object, ordannots = c(), ...)

## S4 method for signature 'SummarizedExperiment'
plotRLExpr(object, ordannots, assay = 1, sce_thresh = 1000, ...)

Arguments

object

a DGEList, SummarizedExperiment or ExpressionSet object containing gene expression data.

ordannots

variables or computations to sort samples by (tidy style).

...

aesthetic mappings to pass to ggplot2::aes_string().

assay

a numeric or character, specifying the assay to use (for SummarizedExperiment and its derivative classes).

sce_thresh

Integer value. The threshold of sample size for using dot plot instead of box plot.

Value

a ggplot2 object, containing the RLE plot.

Examples

data("dkd_spe_subset")
plotRLExpr(dkd_spe_subset)


DavisLaboratory/standR documentation built on Sept. 8, 2024, 9:57 p.m.