Cool idea! You can switch into an existing system (like Pirate Borg, Limithron's Guide to Naval Combat for 5e, Oak & Iron, etc.). But I would encourage you to continue to develop your own system as only you know what you want to get out of it (there is nobody better than you to do this). Some players want a lot of simulated tactical movement with miniatures, others want more of an abstraction and just want to feel like they are contributing somehow to a naval battle (a la 7th Sea). Oftentimes people homebrew their naval battles based on their existing system (they just look at the ship as a character and apply similar rules to ships that they would a character).
I've been playing a lot of Pirate Borg lately, and let me tell you, I love how that flows from tactical ranged combat on a hex grid to boarding actions. The switch to melee on ship decks is effortless. It is the perfect balance of tactics and you don't have to manipulate 60 miniatures movement from one ship to the next. But there is no reason why you can't homebrew the Primal Quest Yin/Yang system to apply to ships in a way that you find satisfying.