The .FastqcFile Object Class defines a path to the output from the standalone tool FastQC. \lifecyclestable
character(1) denoting a file.path
This class simply refers to a fastqc output file after checking for existence and validity (i.e. the correct internal structure). Underlying files can be zipped (*_fastqc.zip) or extracted directories
The helper function
.FastqcFile() is a simple constructor which
checks validity and enables construction of other dependent classes.
An object of class .FastqcFile
Character vector of length 1 which contains a valid file path.
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# Get the files included with the package packageDir <- system.file("extdata", package = "ngsReports") fl <- list.files(packageDir, pattern = "fastqc.zip", full.names = TRUE) # As this is the root structure, we can only call this # function with an individual file ff <- ngsReports:::.FastqcFile(fl)
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