QualFreqPlot: Plot frequency distributions of quality scores.

In ReQON: Recalibrating Quality Of Nucleotides

Description

Plots the relative frequency distribution of quality scores before and after recalibration.

Usage

QualFreqPlot(QualFreqBefore, QualFreqAfter, before_col = "blue", 
   after_col = "red", inc_legend = TRUE, xlabel = "Quality Score", 
   ylabel = "Relative Frequency", 
   main_title = "Frequency Distributions of Quality Scores")

Arguments

QualFreqBefore	vector of relative frequencies of quality scores before recalibration. The first element in the vector corresponds to a quality score of zero.
QualFreqAfter	vector of relative frequencies of quality scores after recalibration. The first element in the vector corresponds to a quality score of zero.
before_col	color of line plotting the frequency before recalibration. Default = "blue".
after_col	color of line plotting the frequency after recalibration. Default = "red".
inc_legend	option for including a legend. Default = TRUE.
xlabel	x-axis label. Default = "Quality Score".
ylabel	y-axis label. Default = "Relative Frequency".
main_title	title. Default = "Frequency Distributions of Quality Scores".

Details

QualFreqPlot plots the relative frequency distribution of quality scores before and after recalibration. If the input vectors are $QualFreqBefore and $QualFreqAfter from ReQON output, this function will create the top right diagnostic plot that is output from ReQON.

For more details and interpretation, see the vignette by: browseVignettes("ReQON").

Author(s)

Christopher Cabanski [e-mail]

Examples

## Create data of frequencies
require( stats )
before <- dpois( c( 0:40 ), 40 )
  before <- before / sum( before )
after <- dnorm( c( 0:40 ), mean = 30, sd = 8 )
  after <- after / sum( after )

## plot
QualFreqPlot( before, after )

ReQON documentation built on Nov. 8, 2020, 6:53 p.m.