Assembly annotation tool?

[metheuse]

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.

[GenoMax]

For individual bacterial genomes NCBI Prokaryotic Genome Annotation Pipeline: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/

[metheuse]

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?

[condomitti]

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/

[metheuse]

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.