ReQON (version 1.18.0)

ReadPosErrorPlot: Plot distribution of errors by read position.

Description

Plots the number of sequencing errors by read position.

Usage

ReadPosErrorPlot(ReadPosErrors, startpos = 1, error_col = "blue", thresh = 1.5,  thresh_col = "cyan", xlabel = "Read Position", ylabel = "# Errors",  main_title = "Distribution of Errors by Read Position")

Arguments

ReadPosErrors

vector of sequencing error counts by read position.

startpos

Starting read position, typically 0 or 1. Default = 1.

error_col

color of line plotting the errors counts. Default = "blue".

thresh

Threshold for identifying read positions with large numbers of errors, plotted as a horizontal dashed line. Threshold is set as ``thresh * (average number of errors per read position)''. Default = 1.5.

thresh_col

color of threshold line. Default = "cyan".

xlabel

x-axis label. Default = "Read Position".

ylabel

y-axis label. Default = "# Errors".

main_title

title. Default = "Distribution of Errors by Read Position".

Details

ReadPosErrorPlot plots the distribution of sequencing errors by read position. If the input vector is $ReadPosErrors from ReQON output, this function will create the top left diagnostic plot that is output from ReQON.

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

Examples

## Create data of error counts 
x <- c( 1:30 )
err <- x^2 + ( 30 - x )^1.6 + rnorm(30, 0, 100)

## plot errors by read position
ReadPosErrorPlot( err )