plotBaseProductionRate: Plot the mean rate at which bases are recorded

In grimbough/IONiseR: Quality Assessment Tools for Oxford Nanopore MinION data

Description

For each read, the ratio between the total number of bases called in the read (template and complement strand, but not 2D composite) and the time spent in the pore is calculated. This is then plotted against the time the read entered the pore, allow us to assess whether the rate at which callable bases are read changes during the experiment run time.

Usage

plotBaseProductionRate(summaryData)

Arguments

summaryData

Object of class Fast5Summary.

Details

This is likely very similar to plotEventRate, although one may find that large number of events occur that can not be base called, resulting in a difference between these two plots.

Value

Returns an object of class gg representing the plot.

Examples

if( require(minionSummaryData) ) {
   data(s.typhi.rep2, package = 'minionSummaryData')
   plotBaseProductionRate( s.typhi.rep2 )
}

grimbough/IONiseR documentation built on Sept. 24, 2020, 11:32 a.m.