I didn't particularly care for any of these, but they are stories that contain werewolves.
Ookami no Monshou Kindan no Koi wo Shiyou Kindan no Koi de Ikou
The last is a continuation of the second. The first, if I recall, is a seinen and the latter two are shoujos (I'd recommend those two first, personally, but bear in mind that I tend to prefer dramas and romances).
Watashi no Ookami-kun: Kusonoki Komugi lives with her mother in Tokyo and can't get along with classmates. Because of her mother's business trip, she has to stay with her father in Hokkaido for a year. She thinks she will have opportunities to make new friends. She got to sit next to Ookami Yuu, a popular boy who tells her she smells good. One day, she discovers his secret...
And you might like "Boku wa Ookami". The boy is not a wolf but he was raised by a wolf so he acts like one.