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Old 08-06-2010, 08:52 AM   #1
lechu502
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Location: Bcn

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Default Assisted assembly of contigs into supercontigs/chromosomes

Hi,

We've sequenced novel strain of fungi (genome ~13Mb). I assembled Illumina reads (paired-ends,75bp) into 300-500 contigs (n50 ~96kb).

Now I'm looking for some soft to scaffold these into supercontigs or even into chromosomes. There is reference genome of that species available, done with Sanger.

Do you know any software that may be useful?

Cheers,
Leeko
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Old 12-13-2010, 05:56 AM   #2
boetsie
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Hi Lechu,

Sorry for the late reply, but did you manage to find software for this? I've just posted my tool for scaffolding contigs using paired-end and/or mate pair data. See this thread;

http://seqanswers.com/forums/showthread.php?t=8350

Marten
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