To Remove "Ghost Effects"
1. use the "player.resurrect 1" command to remove ALL effects.
2. save and close skyrim, restart and reload your save to reapply racial bonus
3. use "player.addspell
**NOTE: I have noticed that after following these steps my perk abilities are not being applied correctly, for example I am not able to zoom in with a bow or dual cast destruction spells even though I have perks in the slots; however, I was able to fix this as well by using the following mod...
http://skyrim.nexusmods.com/downloads/file.php?id=3665
Below is a screen shot showing my (naked) character with bonuses that should not be there, after following the provided steps I was able to strip my character of all effects and add them back manually. thanks for all who helped.
http://i.imgur.com/CLSGI.jpg
cheers

I haven't messed with chanting much yet so can't help sorry