[Bioc-sig-seq] finding consensus sites in a set of DNA sequences

Wolfgang Huber whuber at embl.de
Tue Dec 8 14:00:38 CET 2009

Hi Arici

yes. For discovering such sequences, look at the "cosmo" package: 

For simply identifying known candidate sequences, 
vMatchPattern/vcountPattern in "Biostrings" (which also offers 
components with which you can build tools to try your own ideas).

Arici Pogonici scripsit 12/05/2009 11:28 PM:
> Hi dear group -
> please could you let me know whether there is any command in R/BioC that
> would allow to identify long consensus sites (16-20 nt length) in a set of
> DNA sequences.
> Thanks a lot !
> Arici
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Best wishes

Wolfgang Huber

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