Assuming a typical 24 team WIS league: If the NL wild card winner has 110 wins, they are the #4 NL seed, even if they have the 2nd most wins in the entire league. They go on to the World Series to play an AL division winner with 80 wins. The AL division winner was the #3 AL seed. #3 is higher than #4, so the 80 win team is the home team in the World Series.
Only time wins would factor into it is if both World Series teams had the same seed, then wins is the tie breaker.