plotGCcontent: plotGCcontent: Plots the proportions of relative GC content...
In seqTools: Analysis of nucleotide, sequence and quality content on fastq files

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

The function creates plots on proportions of relative GC content. For each FASTQ file from wich data is contained, one separate line is plotted. A value of 0.1 at the proportion of 40 says that 0.1 % of the reads have 40 % GC content.

1	plotGCcontent(object, main, ...)

object

Fastqq: Object which contains collected values from nFiles FASTQ files.

main

integer(optional): The main title displayed on top of the plot. When missing, a standard text is printed.

...

Other arguments which are passed to the internally called plot function.

The area under each plotted line adds up to 1.

None.

Wolfgang Kaisers

Fastqq-class

basedir <- system.file("extdata", package="seqTools")
setwd(basedir)
fq <- fastqq(c("g4_l101_n100.fq.gz", "g5_l101_n100.fq.gz"), k=4, 
    probeLabel=c("g4", "g5"))
#
plotGCcontent(fq)