\name{plotGCcontent}
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% Alias
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\alias{plotGCcontent}
\alias{plotGCcontent-methods}
\alias{plotGCcontent,Fastqq-method}
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\title{plotGCcontent: Plots the proportions of relative GC content for all
    FASTQ files.}
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\description{ 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.}
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\usage{plotGCcontent(object, main, ...)}
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\arguments{
    \item{object}{\code{Fastqq}: Object which contains collected values from 
        \code{nFiles} FASTQ files.}
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    \item{main}{\code{integer}(optional): The main title displayed on top of 
        the plot. When missing, a standard text is printed.}
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    \item{...}{Other arguments which are passed to the internally called 
        plot function.}
}
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\details{The area under each plotted line adds up to 1.}
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\value{None.}
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\author{Wolfgang Kaisers}
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% Examples
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\examples{
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)
}
\keyword{plotGCcontent}
\keyword{kmer}
\seealso{Fastqq-class}