Hi All,
I am updating my R package that is currently on CRAN.
I am looking to have my main package function iterate through some files in
a directory, but am having some issues. In my function, I do the following
(I might switch to 'replicate()' instead since non-preallocated for loops
can be very slow):
file.names <- dir(path, pattern = ".fas")
for (i in 1:length(file.names)) {
# read in DNA sequences using 'pegas' package
seqs <- read.dna(file = file.names[i], format = "fasta")
}
However, I am uncertain how my function should handle the 'path' argument
to dir(). I could provide 'path' as an explicit argument to my function,
but is there a less direct way?
What I'm after is something like 'file.choose()', except for a folder,
rather than a file.
Has anyone implemented something similar in their R packages?
Thanks!
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