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Old 03-10-2015, 07:18 PM   #17
inkang
Junior Member
 
Location: South Korea

Join Date: Mar 2015
Posts: 1
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Dear Brian,

Is it possible to use BBNorm to normalize filtered subreads from PacBio sequencing?

BBNorm seems to work well for my Illumina MiSeq data.
But, when I tried it for PacBio filtered subreads (fastq format), the resulting output file was empty.

Actually, I'm working on PacBio sequencing data from MDA-amplified single cell genomes. When I assembled the data using HGAP (SMRT Analysis), the results were not good (too many rather short contigs). Some of my colleagues told me that uneven coverage might be the cause of bad assembly. So, I've been trying to normalize raw data.

Thanks.
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