Signac (version 1.14.0)

AnnotationPlot: Plot gene annotations

Description

Display gene annotations in a given region of the genome.

Usage

AnnotationPlot(
  object,
  region,
  assay = NULL,
  mode = "gene",
  sep = c("-", "-"),
  extend.upstream = 0,
  extend.downstream = 0
)

Value

Returns a ggplot object

Arguments

object

A Seurat object

region

A genomic region to plot

assay

Name of assay to use. If NULL, use the default assay.

mode

Display mode. Choose either "gene" or "transcript" to determine whether genes or transcripts are plotted.

sep

Separators to use for strings encoding genomic coordinates. First element is used to separate the chromosome from the coordinates, second element is used to separate the start from end coordinate.

extend.upstream

Number of bases to extend the region upstream.

extend.downstream

Number of bases to extend the region downstream.

Examples

# \donttest{
AnnotationPlot(object = atac_small, region = c("chr1-29554-39554"))
# }