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Old 03-08-2017, 08:39 AM   #19
fanli
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Location: California

Join Date: Jul 2014
Posts: 198
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Would something like kraken or CLARK not be helpful? Are you trying to assemble and annotate de novo genomes? Or trying to figure out the microbial composition and functional content? I guess my point is you would discard ~40% of your data in the joining process, which may not be necessary depending on your task of interest.
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