UGENE Forum - de-novo assembly

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de-novo assembly (Read 9373 times)

Jan 7^th, 2010 at 5:54pm

assembler Offline
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Do you have plans to add modules for de-novo genome assembly for 454 and/or Illumina sequencers? I am particularly interested in using it with 454 data. I don't think you have this functionality in the current version but sorry if I missed something.

Many thanks

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Reply #1 - Jan 22^nd, 2010 at 12:03am

Mikhail Fursov Offline
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Hi!

The feature looks interesting.

Do you know if there is a good open-source software we can integrate to solve the problem?

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Reply #2 - Feb 1^st, 2010 at 11:32pm

Jens Offline
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AMOS might be what you are looking for

https://sourceforge.net/apps/mediawiki/amos/index.php?title=AMOS

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Reply #3 - Feb 2^nd, 2010 at 7:01pm

Mikhail Fursov Offline
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Jens wrote on Feb 1^st, 2010 at 11:32pm:

AMOS might be what you are looking for

https://sourceforge.net/apps/mediawiki/amos/index.php?title=AMOS

Thanks Jens, having an assembler in the package is a hot topic for the dev-team now so we will definitely review the AMOS as a good candidate.

BTW have you ever heard about Bowtie project: http://bowtie-bio.sourceforge.net/index.shtml ?

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