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Old 11-25-2010, 12:29 AM   #1
kasutubh
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Location: US

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Default How to merge individual contigs

Hi Everyone,

I would really be thankful if anyone is able to tell me solution to the following,

1. I have sequences some BAC clones and have generated contigs. It turns out that 2 BAC's represent same genomic regions..so I would like to merge contigs from both the sources and get larger contigs.
2. Is there any tool whereby I can merge contigs from both the clones?

Thanking you,
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Old 11-25-2010, 01:09 AM   #2
maubp
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Maybe try the classic assembly tool PHRAP? Or do it "by hand" if it really is just 2 BACs's (in a text editor or your scripting language of choice).
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Old 11-27-2012, 10:43 PM   #3
sunyuhui
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I'm having the same problem too...

I've tried Phrap/CAP3/CABOG, but none of them is good enough. Or maybe I missed some important parameters?

Anyone got a good solution?
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Old 11-27-2012, 11:46 PM   #4
maubp
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You could try an assembly editor like gap4 or gap5 for manual finishing.
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