[maker-devel] General question

[Brandi Cantarel]

Maker's predictions are improved with evidence.  These proteins can be from uniprot (I recommend uniprot50) or from a closely related taxa.

Maker uses comparisons to these proteins in its prediction.  There is more detail on this in the paper.

Sent from my iPhone

> On May 28, 2014, at 3:26, Panos Ioannidis <panos.ioannidis at gmail.com> wrote:
> 
> I'm going through the Maker tutorial and saw that among the input files you give it, there's a fasta file with proteins (the protein=xxx parameter in the maker_opts.ctl file).
> 
> What exactly are these proteins? I thought Maker both predicts genes (i.e. proteins) and also annotates them. Does it only do annotation of already predicted genes/proteins? But then, why is it using gene predictors like Augustus, SNAP, etc?
> 
> Thanks,
> Panos
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