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Old 10-13-2011, 04:04 PM   #1
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Location: Washington, DC

Join Date: Nov 2010
Posts: 4
Default Alternate contig scaffoldings with ABySS

Hi everybody,
I would like to know if anyone tried to scaffold contigs returned from ABYSS using several n (the minimum number of pairs needed to consider joining two contigs) values, starting from the same dataset of contigs obtained with a certain k value. How should I run the abyss-pe script in order to start from ABYSS results (*-3.fa, lib.hist and lib.dist) and not to perform the assembly again?

I use Abyss 1.2.5. I run it on a Mac machine and encountered some difficulties in compiling 1.3.0.

Thanks to everybody
RLB_84 is offline   Reply With Quote

abyss, abyss-pe, de novo assembly, scaffolding

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