I work in the battery business, and second Scott's advice on this. I would do it exactly the way he recommended.
The only piece of advice I would give is; make sure you use the rubber gommets, and make sure you keep that positive cable well secured, snuggly fitted, and well insulated. Having the positive cable come in contact with any metal on the car is a very nasty situation at best. Not to mention dangerous. You can have a complete melt down of all your electrical system if that shorts out. Not to make you parinoid or anything
I would also recommend you put an "inline" (negative) quick dissconnect. That way you can disconnect the battery quickly and easily for a number of different reasons. Winter storage, making mods that require the battery to be disconnected. Not to mention emergencies. Otherwise you have to keep taking the negative terminal off the car (a pain). These work by hand, no tools needed. You can also use a battery switch (more expensive). You can find them at any auto parts store.