plot_qual_profs: plot_qual_profs

In padpadpadpad/MicrobioUoE: R package for making our life easier

Description

Plots quality profiles of single fastq files

Usage

plot_qual_profs(filename, files_Fwd, files_Rev, subsample = NULL, ...)

Arguments

filename	file name of pdf
files_Fwd	list of fastq files of the forward reads
files_Rev	list of fastq files of the reverse reads
subsample	number of subsamples of the data to take instead of plotting every single file. Defaults to every single file
...	extra arguments to pass onto pdf() such as height and width

Details

uses dada2::plotQualityProfile to plot multiple quality profiles into a single pdf

Value

a pdf of quality profiles

Examples

## Not run: 
files_Fwd <- 'examp_R02.fastq'
files_Rev <- 'examp_R01.fastq',
plot_qual('~/Desktop/qualplots.pdf', files_Fwd, files_Rev)
## End(Not run)

padpadpadpad/MicrobioUoE documentation built on April 6, 2020, 6:28 p.m.