It should be the least liked group when it comes to religion. Atheists are not a minority group.
and why are they not? if you are linking the term "minority" to ethnicity, then that's just wrong. women are not an ethnic group, nor are the LGBT community. minority group just means a distinguishable group of people that are.. in the minority.
Glancing over this article more you're right, I think this article was written by an extremely jaded religious person who doesn't like the fact that more and more people are rejecting religion, I don't think it has much to do with Atheism just the fact that people are openly telling religious people to go fuck themselves.