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Old 11-19-2012, 08:29 AM   #1
Location: IL

Join Date: Oct 2012
Posts: 10
Default rate Ask for help! how to integrate BAC scaffolds and Illumina Data

Hi All,

This is my first time to do de novo genome assembly for a specific region. Now I have assembled BAC scaffolds and I also assembled illumina short reads to scaffolds using SGA assembler. Then I want to use scaffolds from the short reads to fill the gaps among BAC scaffolds. Do you guys have some idea to recommend a software for me?
Thank you so much!

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Old 11-19-2012, 04:17 PM   #2
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Location: Adelaide, Australia

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Posts: 119

You could use another assembler like Phred/Phrap. There should be a few threads on the site where people have used different programs for scaffolding. Have a bit of a dig around in the similar threads
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