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Old 01-10-2014, 03:55 AM   #4
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Location: Santa Fe, NM

Join Date: Oct 2010
Posts: 250

It's too bad SGA is still in experimental phase, and it appears that it is making genome type assumptions about coverage, otherwise for read correcting and data reduction it is an awesome assembler. Maybe you could just use the read correcting and reduction feature.

The problem with Kmer reductions, is precisely that if there are lots of data to begin with you get a situation where there are more errors than signal, since the signal is more likely to be redundant therefore discarded, especially in high coverage areas.
rskr is offline   Reply With Quote