Preheat oven to 375F. Grease a 12-tin muffin tray or line with paper muffin cups.
Mix the whole wheat flour, all purpose flour, oats, baking powder, cinnamon, wheat germ and flax meal in a large bowl.
Mix all of the wet ingredients: egg, applesauce, brown sugar, canola oil and vanilla extract in a medium sized bowl.
Gently fold in the wet ingredients to the dry ingredient mixture.
Evenly fill muffin tin with batter, approximately 3/4 of the way.
Bake for 25 minutes or until a toothpick from the center comes out clean.
Let the muffins cool for 10 minutes before removing them from the tray.