Television footage appeared to show Aguero pushing a supporter away after being approached on the pitch.
Latics chairman David Sharpe told BBC Breakfast: "The emotions of football can sometimes get the better of fans and that was evident last night".
"Football is an emotional game, it does odd things to people".
Guardiola has been calling for referees to clamp down on bad tackling in recent months and the irony won't be lost on many that it was one of his players who'd see a straight red card for a bad challenge. "I'm massively disappointed we have not gone to the next round". "I don't like what I am seeing here".
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Information regarding the threat first came in about 10 minutes before the shooting, which took place around 7:51 a.m. All other students and teachers in the middle school are safe and have not been released.
Guardiola, who said his side "gave absolutely everything", refused to comment in detail about the red card, and his subsequent clash with Cook.
Referee Anthony Taylor initially pulled the yellow card out of his pocket and then appeared to change his mind, with Guardiola reacting furiously.
"Nothing happened in the tunnel, nothing happened with my colleague", the Spaniard said.
Some City fans could be seen ripping advertising boards from the stadium and hurling them in the direction of police and stewards, while there was a threat of confrontation as Wigan fans gathered in front of the stand holding the away fans.
The City boss has called for better protection for players from unsafe tackles after some strong challenges and, with the boot on the other foot, did not change his tune.
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A cheer of "yes" came from the public gallery where six victims sat with family members as the final verdicts were read out. Between 1985 and 1992, he was on the coaching staff at Crewe.
Earlier the drama had been provided by Northern Ireland global Grigg who capitalised on an error by Kyle Walker - who allowed a pass to run through to the Wigan man - and kept ahead of John Stones before finishing clinically from just inside the area.
In the 72nd minute, substitute Kevin De Bruyne played a low cross into Wigan's penalty area, however, Aguero failed to convert from close range.
"Wigan won, congratulations to them and now we rest to prepare for the League Cup final".
"They score a goal, we were not able to, so that's why they deserve to go through".
Wigan's victory, courtesy of a 79th-minute strike from Will Grigg, ended City's historic quest for a quadruple. "From our point of view we are trying to get every edge and everything we can, and from his point of view he wants the game played and he is a fantastic manager".
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The 76ers rookie point guard posted his sixth triple-double on Wednesday with 18 points, 12 rebounds and 10 assists. The biggest cheers at Staples Center went to Lakers youngsters Kuzma and Brandon Ingram on the USA team.