During Sevilla's home defeat, the match was suspended after missiles were thrown from the stands.
Ahead of their Copa del Rey tie at Extremadura, Almeyda said: "When wrongdoing happens, nobody likes it, but now we have to see why it happened. People deserve respect. If you win, you have to be humble and leave; don't provoke.
"You don't provoke. Nothing is right, but what they threw was plastic. How many? One, two..."
He continued: "If they go to South America, then they can't play a match. We're playing football, a derby, there was a provocation, and people reacted like this. I don't agree with anything, neither the provocation nor the reaction, but it's football, and I hadn't hit anyone. These are measures that are taken, and you get used to something else. If someone throws a rock at you, I don't know. A plastic bottle, no big deal . But it's still wrong.
"Why do we focus on our fans? Why is it easier to attack the fans? Because they cannot defend themselves. Why did they do it, besides being angry about losing a derby? And this is coming from someone who did something similar (against Boca). Well done, because that time they robbed us of the game, they didn't call six penalties."
Almeyda understands the fans' anger with his team: "It's understandable what the fans are demanding because they're used to this team winning a lot of things. There's a real frustration at not seeing the team at that level. They're in the process of getting there; it's going to take some time.
"We all have to give our best. I read tomorrow that four thousand people are coming. They have to both insult us and applaud us. That's the reality. It's a fanbase used to winning. When they go through tough times, they find it hard to accept."