Well, yes. And some of it is discussed in the book "Evidence of Evolution
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There's a kerfuffle under way in which Jerry Coyne, PZ Myers,
Chad Orzel says Support the National Center for Science Education:
Attention conservation notice: A couple thousand words of reply to questions about why I think NCSE does what it does, delivered in my capacity as a random blogger not as an NCSE staffer.
The NCSE has put out a press release congratulating Ayala for his Templeton Prize, and thanking him for his support of NCSE. It also parrots his defense of the compatibility of science and religion.