R: Plot length back-spliced exons

plotLenBSEs {circRNAprofiler}

R Documentation

Plot length back-spliced exons

Description

The function plotLenBSEs() generates vertical boxplots for comparison of length of back-spliced exons (e.g. detected Vs randomly selected).

Usage

plotLenBSEs(annotatedFBSJs, annotatedBBSJs, df1Name = "foreground",
  df2Name = "background", title = "")

Arguments

`annotatedFBSJs`	A data frame with the annotated back-spliced junctions (e.g. detected). It can be generated with `annotateBSJs`. These act as foreground back-spliced junctions.
`annotatedBBSJs`	A data frame with the annotated back-spliced junctions (e.g. randomly selected). It can generated with `annotateBSJs`. These act as background back-spliced junctions.
`df1Name`	A string specifying the name of the first data frame. This will be displayed in the legend of the plot.
`df2Name`	A string specifying the name of the first data frame. This will be displayed in the legend of the plot.
`title`	A character string specifying the title of the plot

Value

A ggplot object.

Examples

# Load data frame containing detected back-spliced junctions
data("mergedBSJunctions")

# Load short version of the gencode v19 annotation file
data("gtf")

# Annotate the first 10 back-spliced junctions
annotatedFBSJs <- annotateBSJs(mergedBSJunctions[1:10, ], gtf)

# Get random back-spliced junctions
randomBSJunctions <- getRandomBSJunctions(n = 10, f = 10, gtf)

# Annotate random back-spliced junctions
annotatedBBSJs <- annotateBSJs(randomBSJunctions, gtf, isRandom = TRUE)

# Plot
p <- plotLenBSEs(
    annotatedFBSJs,
    annotatedBBSJs,
    df1Name = "foreground",
    df2Name = "background",
    title = "")
p

[Package circRNAprofiler version 1.1.0 Index]