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Old 10-07-2010, 10:14 AM   #8
Location: Brazil

Join Date: Aug 2008
Posts: 27

It is crucial to correct your reads prior to assembly (using the SOAPdenovo correction tool, SHREC or other). This will save memory in the assembly stage.

Last, SOAPdeNovo uses much less memory than velvet, although in my personal experience velvet produces slightly better assemblies.

Don't forget to optimize the parameters, specially the k-mer size. This has a great influence on memory/time and quality of assembly.
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