plot_agg_regions {NanoMethViz}R Documentation

Plot aggregate regions

Description

Plot aggregate regions

Usage

plot_agg_regions(
  x,
  regions,
  features_group = NULL,
  flank = 2000,
  stranded = TRUE,
  span = 0.05,
  palette = ggplot2::scale_colour_brewer(palette = "Set1")
)

Arguments

x

the NanoMethResult object.

regions

a table of regions or GRanges, or a list of such objects. The table of regions must contain chr, strand, start and end columns.

features_group

if 'features' is a list, a vector of characters of the same length as the list containing names for each member.

flank

the number of flanking bases to add to each side of each region.

stranded

TRUE if negative strand features should have coordinates flipped to reflect features like transcription start sites.

span

the span for loess smoothing.

palette

the colour palette used for groups.

Value

a ggplot object containing the aggregate methylation trend.

Examples

nmr <- load_example_nanomethresult()
gene_anno <- exons_to_genes(NanoMethViz::exons(nmr))
plot_agg_regions(nmr, gene_anno)


[Package NanoMethViz version 1.2.0 Index]