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Old 02-04-2015, 01:05 PM   #6
Brian Bushnell
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Location: Walnut Creek, CA

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Ahh... that's a very low coverage metagenome; I'm not surprised only the most abundant organisms assembled. Metagenomes (especially complex ones) are much harder to assemble than isolates, and thus have greater demands on data - high depth, long reads, low error-rates. You should probably try to get more data, or else try different metagenome assemblers such as Megahit.
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