[maker-devel] make use of other gene finders in maker

[Quanwei Zhang]

Hello:

I am trying to annotate the new genome of  a rodent species. I saw a clear
pipeline to train the SNAP gene finder. But not clear what I should do if I
also want to include augustus and/or GeneMark. Do I need to (could I and
how) train it in Maker? In one of recently published paper, they mention
the augustus was trained in Maker, but I am not clear how to do it? I
wonder what's you opinions on using other gene finders in Maker. Thanks

"Unique features of a global human ectoparasite identified through
sequencing of the bed bug genome." Nat Commun, 2016. In this paper, the
training step was described as below.
*Three rounds of training of the Augustus and SNAP gene predictors within
Maker were used to bootstrap to a high-quality training set.*


Best
Quanwei
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