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Old 03-08-2017, 08:37 AM   #18
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Join Date: Apr 2013
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Originally Posted by fanli View Post
Out of curiosity, why are you joining the read pairs? A lot of the metagenomics software out there now supports paired end reads as input. The metaSPAdes assembler @GenoMax mentioned requires paired end data IIRC.
Hey, I did try metaSPAdes, less than 1% of total reads assembled. A lot of people tried alternative methods, joined paired-ends and get long reads, but don't assembled reads. Then, use the long merged reads to do BLAST or other annotations.
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