I'm building my first coop, and I'm trying to learn some carpentry as I go. My coop will be a small 3x4 foot coop for 3 hens. I'm planning on copying some coop examples that use a frame like this (there is a nesting box on the side, and I'd add a slope to the front for the roof once I master SketchUp):
I notice, however, that my shed, and any bigger structures use frames built with the 2x4's flipped the other way. More like this, with the 4 inch side on the bottom:
Since I've seen very stong-looking coops built either way, I'm thinking it doesn't matter. Does it? Will the frame be strong enough either way? Are there any other advantages/disadvantages?

I notice, however, that my shed, and any bigger structures use frames built with the 2x4's flipped the other way. More like this, with the 4 inch side on the bottom:

Since I've seen very stong-looking coops built either way, I'm thinking it doesn't matter. Does it? Will the frame be strong enough either way? Are there any other advantages/disadvantages?