Hi Warren,
You may want to read this if you haven't already:
http://hrvtraining.com/2012/08/27/supine-vs-standing-hrv-measurement-is-one-better-than-the-other/
I think the takeaway here is to be consistent in what position you measure your HRV. Since you are just starting I would try sitting to see if there is much of a difference all other things being equal.
Warren Ellis