Hi,
I would like to develop a Bioconductor package that calls Perl scripts for
certain functions. I currently have a standalone program written in Perl that
calls Rscript at certain steps, so I would like to switch this around.
It looks like I can call Perl scripts using the 'system' command, but I am
wondering if there is a better way to call the Perl scripts as part of an R
package. For example, I know data files should be stored in "data", demo files
should be called using system.file (for files located in "inst/extdata"). Is
there a folder where I should save external scripts and a systematic way to
call those scripts, so that I don't need to know the full installation path?
I'm assuming that I shouldn't be saving Perl scripts in the 'R' folder.
Thanks,
Charles
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