"The Phantom Knights" is an archetype that contains a number of Trap cards. They all have an effect that turns them into a Monster with an added effect that says they are not treated as Traps. For instance, The Phantom Knights of Dark Gauntlets.
Send 1 "Phantom Knights" Spell/Trap Card from your Deck to the Graveyard. When an opponent's monster declares a direct attack while you control no cards and this card is in your Graveyard: Special Summon this card in Defense Position as an Effect Monster (Warrior-Type/DARK/Level 4/ATK 300/DEF 600), but banish it when it leaves the field. (This card is NOT treated as a Trap Card.) If Summoned this way, this card gains 300 DEF for each "Phantom Knights" Spell/Trap Card in your Graveyard.
If their effects are negated, do they count as a Monster with negated effects or a Trap card?