annotateGenePlot: Plots and annotates transcripts

Description Usage Arguments Value

View source: R/plotVariants.R

Description

Plots the gene structure, annotates this with the target location

Usage

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annotateGenePlot(txdb, target, target.colour = "red", target.size = 1,
  gene.text.size = 10, panel.spacing = grid::unit(c(0.1, 0.1, 0.1, 0.1),
  "lines"), plot.title = NULL, all.transcripts = TRUE)

Arguments

txdb

A GenomicFeatures:TxDb object

target

Location of target (GRanges)

target.colour

Colour of box indicating targt region

target.size

Thickness of box indicating target region

gene.text.size

Size for figure label

panel.spacing

Unit object, margin size

plot.title

A title for the plot. If no plot.title is supplied, the title is the list of gene ids shown (default). If plot.title == FALSE, the plot will not have a title.

all.transcripts

If TRUE (default), all transcripts of genes overlapping the target are shown, including transcripts that do not themselves overlap the target. If FALSE, only the transcripts that overlap the target are shown.

Value

A ggplot2 plot of the transcript structures


HLindsay/CrispRVariants documentation built on May 28, 2019, 12:40 p.m.