[maker-devel] Predictions without evidence

[Loïc]

Hello,

I am a Ph. D. student, and I am using MAKER to automate gene prediction 
for many genomes as part of a genome mining work, so I don't include 
evidence for its use.
If I understood well, when exploiting multiple gene predictor softwares, 
AED is used to define the prediction which matches the best the evidence.

So, as I don't use evidence, is there a choice made by MAKER when 
working with multiple gene predictors? If yes, how does it work?
Also, I have not well understood, if the selection of the gene predictor 
to use is made for every gene?

Sorry to asking if the answer is obvious, but after reading your papers 
and looking on the archived posts, I have not found the answer.

By the way, I have also a question about your paper on MAKER2 (Holt and 
Yandell, 2011). It is said many times that gene predictors used in MAKER 
pipeline give better results than when used alone, but I have not 
understand why. Can you explain this fact?

Best regards,

Loïc Meunier