rqcCycleAverageQualityPlot: Per cycle average quality by files
In Rqc: Quality Control Tool for High-Throughput Sequencing Data

Description Usage Arguments Value Functions Author(s) See Also Examples

View source: R/rqcCycleAverageQualityPlot.R

This function plots line graph of per cycle average quality.

1
2
3

rqcCycleAverageQualityCalc(rqcResultSet)

rqcCycleAverageQualityPlot(rqcResultSet)

rqcResultSet

list of RqcResultSet objects created by rqc and rqcQA functions.

ggplot2 object

rqcCycleAverageQualityCalc: calculates necessary statistics

Welliton Souza

rqcGroupCycleAverageQualityPlot plots cycle-specific quality by groups

checkpoint("Rqc", path=system.file(package="Rqc", "extdata"), {
  folder <- system.file(package="ShortRead", "extdata/E-MTAB-1147")
  files <- list.files(full.names=TRUE, path=folder)
  rqcResultSet <- rqcQA(files, pair=c(1,1), workers=1)
}, keep="rqcResultSet")
rqcCycleAverageQualityPlot(rqcResultSet)