short-reads assemble and mapping

[zhuocheng Hou-2]

Hi Everyone,

I am seeking for software which can assembl short-reads (<60bp) and also can
use draft genomic data to pileup data. As I know, MAQ, Velvet, ELAND etc
didn't use draft genome data. I guess we can get the better assembl results
by incoporating the short-reads and genomic data. Can anyone give me some
clues about these kinds of software?

Thanks,
Zhuocheng
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[lry198010]

On Apr 23, 12:55 am, zhuocheng Hou <zc...@...> wrote:

> Hi Everyone,
>
> I am seeking for software which can assembl short-reads (<60bp) and also can
> use draft genomic data to pileup data. As I know, MAQ, Velvet, ELAND etc
> didn't use draft genome data. I guess we can get the better assembl results
> by incoporating the short-reads and genomic data. Can anyone give me some
> clues about these kinds of software?
>
> Thanks,
> Zhuocheng

Hi:
   I have remember that bioinformatics or BMC bioinformatics have
publish a paper recently, which introduce a new assembly tool agree
with the requirement.

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[Don Gilbert-5]

You might also look at this web forum, SEQanswers, http://seqanswers.com/
"SEQanswers was founded to be an information resource and user-driven community
focused on all aspects of next-generation genomics"
e.g. bioinformatics aspects are at
http://seqanswers.com/forums/forumdisplay.php?f=18

- Don Gilbert
--
-- d.gilbert--bioinformatics--indiana-u--bloomington-in-47405
-- gilbertd@...--http://marmot.bio.indiana.edu/

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