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Old 11-21-2013, 10:05 AM   #1
metheuse
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Default Assembly annotation tool?

The purpose is to annotate de-novo bacteria genome assembly. I see there are many tools, like GeneMark, RAST, etc. Does any one have any recommendation, for de-novo annotation, and comparative annotation, respectively? Thanks a lot.
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Old 11-21-2013, 10:16 AM   #2
GenoMax
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For individual bacterial genomes NCBI Prokaryotic Genome Annotation Pipeline: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/
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Old 11-21-2013, 10:45 AM   #3
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Quote:
Originally Posted by GenoMax View Post
For individual bacterial genomes NCBI Prokaryotic Genome Annotation Pipeline: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Thanks! But it seems that only when I submit genomes to GenBank I can request annotation by this pipeline. Could I use this pipeline to analyze my data independent of submission?
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Old 11-22-2013, 02:40 PM   #4
condomitti
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I've used Artemis for annotation once... works very well and has some handy features that facilitates all the process.

Take a look at http://www.sanger.ac.uk/resources/software/artemis/
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Old 11-22-2013, 04:01 PM   #5
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I've used Artemis for annotation once... works very well and has some handy features that facilitates all the process.

Take a look at http://www.sanger.ac.uk/resources/software/artemis/
Thanks! I'll take a look.
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