R: Plot N-Rate by read cycle

makePlot.missingness.rate {QoRTs}

R Documentation

Plot N-Rate by read cycle

Plots rate by which the sequencer cannot determine the base, by read cycle.

  makePlot.missingness.rate(plotter, r2.buffer = NULL, 
                        debugMode, singleEndMode,...)

`plotter`	A `QoRT_Plotter` reference object. See `build.plotter`.
`r2.buffer`	Buffer space to place between the plotting of read 1 and read 2. By default this will choose a reasonable value.
`debugMode`	Logical. If TRUE, debugging data will be printed to the console.
`singleEndMode`	Logical. Determines whether the dataset consists of single-ended reads. By default this is determined from the data. Thus, this parameter should never need to be set by the user.
`...`	Arguments to be passed to methods, such as graphical parameters (see `par`).

x-axis: Read Cycle

y-axis: Rate at which the sequencer assigns an 'N' base.

  data(res,package="QoRTsExampleData");
  plotter <- build.plotter.colorByGroup(res);
  makePlot.missingness.rate(plotter);

## Starting: Missingness Rate, by read cycle plot.
## Finished: Missingness Rate, by read cycle plot.[time: 2016-01-28 16:33:02],[elapsed: 0.1 secs]

plot of chunk unnamed-chunk-1

[Package QoRTs version 1.0.7 Index]