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-   -   ORF Finder-Metagenome (http://seqanswers.com/forums/showthread.php?t=42295)

vanillasky 04-09-2014 04:18 AM

ORF Finder-Metagenome
 
I've finished my first metagenome assembly and would like to know if there is a good ORF finder I could try out before proceeding to functional annotation with CAMERA for example.

maasha 04-09-2014 04:35 AM

Prodigal is really good. It's got a *meta* switch.

http://prodigal.ornl.gov/

vanillasky 04-09-2014 05:02 AM

Thank you, I also found out CAMERA has an ORF finder as well.

lac302 05-07-2014 07:32 AM

vanillasky...are you mining assemblies for specific genes/enzymes?

i'm trying to figure out a more automated way of picking out ORFs that relate to specific enzyme families.

vanillasky 05-08-2014 01:34 AM

Hi Lac302! Maybe you can clarify what you mean by mining assemblies? I am interested in annotating the contigs coming out of my assembled metagenomes. Ultimately, yes I would like to focus on those contigs containing genes related to a certain function.


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