plotReadQualities: Reproduce the sequence duplication plots from FastQC
In steveped/fastqcWrap: Provides wrappers to FastQC from within R

Description Usage Arguments Details Value Author(s)

Look through the .zip file produced by FASTQC to obtain a summary of sequence duplication levels

Look through the .zip file produced by FASTQC to obtain summary of read qualities

plotDuplicationLevels(qcDir, fqNames, suffix = "_fastqc.html", merge = TRUE,
  mergeFun = mean)

plotReadQualities(qcDir, fqNames, suffix = "_fastqc.html", merge = TRUE,
  mergeFun = median)

`qcDir`	the directory to look in for the FASTQC reports
`fqNames`	Optional vector of filenames to extract the totals for.
`suffix`	The suffix to remove from the file names
`merge`	Merge across all files. Defaults to TRUE.
`mergeFun`	The averaging function to use at each position when merging files. Defaults to `mean`, but can be anything similar such as `min` or `median`.
`qcDir`	the directory to look in for the FASTQC reports
`fqNames`	Optional vector of filenames to extract the totals for.
`suffix`	The suffix to remove from the file names
`merge`	Merge across all files. Defaults to TRUE.
`mergeFun`	The averaging function to use at each position when merging files. Defaults to `median`, but can be anything similar such as `min` or `mean`.