The hate part may be more obvious on the mountain bike side of things, although I'm sure there are some Klein and Lemond (especially Lemond) that hate Trek.
But on the mountain bike side you had 2 early pioneers and innovators in Gary Fisher and Keith Bontrager and when Trek took over they are seen as minimizing those bikes. It probably makes no difference if they probably would not have survived, a Trek 9xx would always be inferior to a Bontrager race frame. Trek was no longer that small town Midwest manufacturer, they were the conglomerate that was taking advantage of the other grassroots bicycle companies.
John