The one big manifold in the basement with individual lines to each fixture is called a homerun system.
In a small home I usually just size the tubing correctly and run it in a conventional manner. I'm no fan of home run systems. It is impossible to recirculate hot water on a home run system and I hate waiting for hot water.
On a larger home I tend to go a bit hybrid. I pipe in the conventional manner then on a bathroom group I go with a mini manifold mounted in a closet or other access point.