.FastqcFile-class {ngsReports} | R Documentation |
The .FastqcFile Object Class defines a path to the output from
the standalone tool FastQC.
'
x |
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
path
Character vector of length 1 which contains a valid file path.
# Get the files included with the package packageDir <- system.file("extdata", package = "ngsReports") fl <- list.files(packageDir, pattern = "fastqc.zip", full.names = TRUE)[1] # As this is the root structure, we can only call this # function with an individual file ff <- ngsReports:::.FastqcFile(fl)