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07-21-2014, 09:59 AM
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Junior Member
Location: Ontario Join Date: Jul 2014
Posts: 1
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Velvet Assembly Fail
Hi everyone,
I just attempted my first de-novo assembly of my ddRAD sequences in Velvet, and got some weird results. I'm using ddRADseq for SNP discovery (and QTL and linkage mapping) in a 1.2 Gb genome, so I'm expecting to assemble many smallish contigs that are similar in size to my library inserts. After running Velvet with k =31, I received 9 contigs of around 75 bp, using only 100,000 or so of 20,000,000 reads. Anyone have any idea what's going on? |
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