[maker-devel] General question

[Panos Ioannidis]

Thanks Brandi.


On Wed, May 28, 2014 at 1:11 PM, Brandi Cantarel <b.cantarel at gmail.com>wrote:

> 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=xxxparameter 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
>
> _______________________________________________
> maker-devel mailing list
> maker-devel at box290.bluehost.com
> http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20140528/c61d588f/attachment-0003.html>