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In Pokémon HeartGold, you can find the White Flute in Route 47 in the Johto region.
you get the white flute by findering the suite key at the valor lakefront
The white flute I think attracts Pokemon. Later in the game you can also receive a black flute. The black flute on the other hand repels Pokemon.
It works like a repel it reflects wild pokemon.
You can find the Poke Flute in the Pokemon Tower. After you free Mr. Fuji, he will give you the Poke Flute.