plotCumulativeBases: Plot bar chart of cumulative read count

In mgaleyuw/NanoGraph: Export Graphs and Statistics from Nanopore Metadata

Description

Uses metadata DataFrame to plot the distribution of reads in ggplot. Can plot read quality in stacked bars, manipulate the width of bins.

Usage

plotCumulativeBases(
  df,
  bin.num,
  plotQual = TRUE,
  qual.bins = c(10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60),
  binWidth = 6000,
  barColor = "#8ec462",
  barColorRamp = c("#8ec462", "firebrick1"),
  colorMapVar = NA,
  dodgeAdjust = 10000
)

Arguments

df	DataFrame of read metadata
bin.num	Number of Bins
plotQual	TRUE or FALSE, default FALSE, plot quality distribution as fill
qual.bins	a vector of quality cutoffs for use with plotQual
binWidth	the width of each bar in b
barColor	the name or hex string of a color if not plotting quality
barColorRamp	a vector of rcolors to be used when mapping two datasets
colorMapVar	name of a column in df to map fill to
dodgeAdjust	a number to adjust the spacing of color mapped bars. Default is 10kb.

Value

a ggplot2 plot

mgaleyuw/NanoGraph documentation built on Dec. 21, 2021, 5:08 p.m.