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That's exactly what they did. They were roundly attacked by a number of those on the left for scaremongering with Trumps odds being a lot better than other publications were showing.
https://www.vox.com/2016/11/3/13147678/nate-silver-fivethirtyeight-trump-forecast
https://www.huffingtonpost.com/entry/whats-wrong-with-538_us_581ffe18e4b0334571e09e74
You're right, I take it back. They were out of sync with the other major polling places on the left once it got closer to the election.
While I love following the prediction markets for this year’s election, the most popular and widely quoted website out there, fivethirtyeight.com, has something tragically wrong with its presidential prediction model. With the same information, 538 is currently predicting a 65 percent chance of a Clinton victory, while HuffPost’s Natalie Jackson and Adam Hooper are projecting a 98 percent chance,[1] and Sam Wang at Princeton Electoral Consortium is predicting a >99 percent chance.[2] What gives?