I just wanted to summarize what I ended up doing so other people will be aware. Unfortunately, the RMS measurement is not what I was looking for. Though rms could technically give me a basic idea of drop-outs could occur, because I'm working with ecological recordings there are too many other factors at play.
Background: The sound streams I am working with are from a two element hydrophone, separated vertically by 2 meters and recording at 100 m below sea level. We are finding that the element sitting at ~100 meters is experiencing heavy drop outs, while the element at ~102 meters is mostly fine. We are currently attributing this to a to-be-identified electrical issue. If both elements were poised to receive auto exactly the same way, rms would work when detecting drop-outs, but because sound is received independently the rms calculation is too heavily impacted by other factors. Two meters can make a larger difference than you'd think when it comes to source levels and signal reception, it's enough for us to localize vocalizing animals (with left/right ambiguity) based on the delay between signal arrivals.
All the same, here's what I did:
library(seewave)
library(tuneR)
foo=readWave("Sound_file_Path")
L=foo@left
R=foo@right
rms(L)
rms(R)
I then looped this process through a directory, which I detail here: for.loop with WAV files
So far, this issue is still unresolved, but thank you for the discussion!
~etg