Ya, Guild Wars Prophecies is way better for people just starting. The game is more for begginers and it gives you a LOT more time to learn how to play before you get to the hard misisons. Factions is more for people that have already played because it gets hard at the third or fourth mission. Not only that, but you basically have to buy the max armor by the fourth misison if you want to live for more than the first 10 seconds of every fight, which for can be really expensive if you just started (who am I kidding, sometimes I don't have enough money for the full set, which you will need, and I'm not new.
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).
If I were you, I would get prophecies first, and then later get factions and merge that with your prophecies account.
Welcome to Guild Wars.