AlleleProfileR.plot: Plotting function

In abruyneel/AlleleProfileR: Genome editing strategy agnostic variant identification and profiling tool

Description

This is the main plotting function of this R-package.

Usage

AlleleProfileR.plot(config, sample.id = NA, gene.id = NA,
  max.insertion.size = 20, ins.size = 5,
  legend.symbol.size = ins.size, legend.text.size = 6,
  plot.text.size = 2, axis.text.size = 8, alternate = NULL,
  alignmenttype = "local-global", type = "full", plotparam = c(2, 1))

Arguments

config	Configuration list, as generated by AlleleProfileR.setup.
sample.id	Sample id, from samples object.
gene.id	Gene id, from genes table.
max.insertion.size	The maximum length of an insertion to be shown in the legend. Larger insertions will be collapsed. Default is 20.
ins.size	The size of the symbols representing insertions within the plot. Default is 5.
legend.symbol.size	The size of the symbols indicating insertions in the legend. Default is ins.size.
legend.text.size	The size of the legend labels. Default is 6.
plot.text.size	The size of the text inside the plot. Default is 2.
axis.text.size	The size of the axis labels. Default is 8.
alternate	Alternate reference for labeling the HDR variant, as defined by AlleleProfileR.alternatereference.
alignmenttype	Type for Biostrings::pairwiseAlignment operation to determine whether two alleles are identical. Default is "local-global".
type	full or count-only
plotparam	barchart types

Value

AlleleProfileR.plot

Author(s)

Arne Bruyneel

abruyneel/AlleleProfileR documentation built on June 12, 2020, 2:47 p.m.