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Old 03-04-2009, 02:11 AM   #1
Stegger
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Location: Copenhagen

Join Date: Nov 2008
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Default List of sequence/genome annotation tools (HELP NEEDED)!

Hi, in reply to a thread here: http://seqanswers.com/forums/showthread.php?t=819 I think it would be great to share tools for annotation of assembled genomes. I have a particular interest in bacteria, but why not make a list of all available tools.

For bacteria I have tried the Manatee annotation service at JCVI:
http://www.jcvi.org/cms/research/pro...vice/overview/

Another tool which I do not have much experience with is The SEED:
http://www.theseed.org/wiki/Main_Page

Suggestion from RudyS: http://www.blast2go.org/

I would greatly appreciate all the links you can provide!

Last edited by Stegger; 03-04-2009 at 02:23 AM.
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Old 03-04-2009, 07:29 AM   #2
Joann
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Default new! International Society for Biocuration

For rapidly evolving, up to date focus on genome sequence annotation and comparative genomics, check out the 3rd International Biocuration Conference at

http://projects.eml.org/sdbv/events/...ing/index.html

and do not hesitate to bring forward questions, ideas, suggestions and collaborative projects for all kinds of database annotation strategies.
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Old 04-14-2012, 12:40 AM   #3
biblio
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Default

Quote:
Originally Posted by Joann View Post
For rapidly evolving, up to date focus on genome sequence annotation and comparative genomics, check out the 3rd International Biocuration Conference at

http://projects.eml.org/sdbv/events/...ing/index.html

and do not hesitate to bring forward questions, ideas, suggestions and collaborative projects for all kinds of database annotation strategies.
very useful Information for me
thanks
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Old 04-14-2012, 07:34 AM   #4
dsenalik
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Location: Madison WI USA

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Default

A new tool released recently ~March 2012 is Mitofy http://dogma.ccbb.utexas.edu/mitofy/ for annotation of plant mitochondrial genomes.
And of course the corresponding tool for plastid genomes that has been available for a while is Dogma http://dogma.ccbb.utexas.edu/
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