Obviously it comes down to personal choice but here is what I did. I got 9 hens just over a year ago. I researched and decided I liked the idea of deep litter. My coop is 6'x8' inside. I started with full bag of pine shaving from a local store. One of the bags of compressed chips would put a full layer down about 2-3 inches deep. After that, every couple weeks after I mow my yard I rake up a trash bag of grass clippings and throw them in. Then 3-4 weeks later I'll throw in some leaves, or maybe some straw. I try to switch it up a little and the hens really love scratching through the new layer of stuff, looking for bugs. When I built my coop I had this in mind so my pop door, entry door and nest box doors are all about a foot off the floor so I can allow for the litter to build up. Last year I did this all summer until around October. I shoveled everything out and put the contents on top of my garden for the winter, then I started over in the coop. I used the same process for winter (minus the grass clippings) using leaves and straw. I let it go that way all winter and then yesterday I shoveled it all out again and spread it over my garden again before I tilled it.
I have noticed that in this environment that the straw does not break completely down and compost but all the manure, leaves, and grass, break down into a good composting material.
Obviously there is a slight smell in a coop that houses 9 chickens but there is never an overwhelming or strong smell of manure or ammonia. I have plenty of ventilation which is a must. I decided on this method because for me it was the cheapest and the easiest. I live a busy life and I knew that I didn't want to have a coop that I would have to pick up manure or clean out every day or every week. I do the same form my run, straw, leaves, and grass clippings. I don't try to save the "compost" in the run. I add the material and leave it until it gets down to what looks like mud then I add a new layer. I don't ever let them have a muddy run. After a year of doing it this way it is easy and I have see no ill affects. I also throw a hand full of scratch grains in once a week or so and the hens dig around helping turn the litter over.