Here's how I've done it:
1.) Take off the seat, take the cap off the overflow bottle.
2.) Take the lower radiator hose off (a big mess will ensue).
3.) Open the bleed valve to drain the last bit (follow the lower radiator hose to the engine to find it - it's part number 33
here - on the left side of the engine)
4.) Flush the system with water - reconnect the bottom radiator hose, fill the radiator with water, start the bike and let it idle for a minute then repeat 1-3. Do this until you don't see coolant coming out anymore.
To fill with water/water wetter:
1.) Put everything back together (coolant bottle cap still off)
2.) Fill the radiator from the radiator cap - water only for now.
3.) Open the bleed screw until water comes out. Close it.
4.) Fill again with water. Squeeze all the coolant hoses to get air out of them (the top one is the most important - often called 'burping' it)
5.) Top off (this would be a good time to add the water wetter)
6.) Start the engine for 30 seconds, top off. Lean the bike to the right if it's not on a stand, top off. Burp the top hose again, top off. Repeat this process until the radiator stays full.
7.) Top off the overflow bottle
8.) Put the radiator cap back on, coolant bottle cap back on, start the bike and let it idle until the fans kick in, and verify that it cools down when they do. Keep an eye on the bike in case something went wrong.
That should do it

. After you've done it once or twice, it'll take less thought than typing this up did.