How can people say Yamato cuts through anything where it's never went up against adamantium? Adamantium is virtually indestructible and can even survive multiple nuclear explosions and suffer no damage.
Wolverine's skeleton is made of the strongest type of Adamantium and only beings of godlike powers like Rune King Thor can manipulate its properties. Vergil isn't a god.
On top of that, Wolverine's healing factor is far more advanced than a son of Sparda. (Deadpool is the only one to surpass him in this regard and would also beat Dante and Vergil) Wolverine has regenerated himself from a freaking drop of blood.
Add all this to how ruthless of a fighter Wolverine is and sheer years of experience that trumps Vergil like 10 times over, don't be so quick to underestimate Logan.
Vergil's picking the wrong fight bub.