Accessing Utility from non-API source on Shiny

Hi all,

I am looking to use a linux-installable utility from an outside source in my Shiny App (http://www.cbs.dtu.dk/services/NetMHC/)

Though it is easy to download the software and call it in a normal system() R script call locally, do you think it would be possible to call the utility/software itself on the app's launched server-side to process and produce output for display on the UI?

Thank you for your suggestions in advance.