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?
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?
