[maker-devel] Plastid annotation

[Shane Brubaker]

Hi, we are embarking on a project to annotate several plastids.  We want to do all the work in-house though (i.e. we don't want to use a web service) and we would like to use MAKER if possible.

As you know the plastid is essentially bacterial, so I get the impression that it would not be appropriate to use Augustus or SNAP on it, is that correct?

Is it possible instead to use Glimmer within MAKER?

I was wondering if anyone has suggestions on 1) how to use MAKER with organellar genomes and 2) other general organellar annotation piplelines that people have found useful (and useable) that are downloadable to a local installation.


Thanks,
Shane Brubaker

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20140108/9aed4124/attachment-0002.html>