plot_grange {NanoMethViz}R Documentation

Plot GRanges

Description

Plot GRanges

Usage

plot_grange(
  x,
  grange,
  anno_regions = NULL,
  binary_threshold = NULL,
  spaghetti = FALSE,
  span = NULL,
  window_prop = 0.3
)

Arguments

x

the NanoMethResult object.

grange

the GRanges object with one entry.

anno_regions

the data.frame of regions to be annotated.

binary_threshold

the modification probability such that calls with modification probability above the threshold are set to 1 and probabilities equalt to or below the threshold are set to 0.

spaghetti

whether or not individual reads should be shown.

span

the span for loess smoothing.

window_prop

the size of flanking region to plot. Can be a vector of two values for left and right window size. Values indicate proportion of gene length.

Value

a patchwork plot containing the methylation profile in the specified region.

a patchwork plot containing the methylation profile in the specified region.

Examples

nmr <- load_example_nanomethresult()
plot_grange(nmr, GRanges("chr7:6703892-6730431"))


[Package NanoMethViz version 2.0.0 Index]