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Old 06-30-2014, 11:34 AM   #1
Junior Member
Location: Nashville

Join Date: Jun 2014
Posts: 8
Smile illumina 454 de novo hybrid

Hi all,

I am currently trying to assemble a 5mb bacterial genome. I have 43bp single end reads from an Illumina Genome Analyzer IIx and 500bp double end reads from a Roche 454 GS FLX and was wondering if anyone had any luck with hybrid de novo assembly for these library types. I have read that putting the illumina data into velvet, using EMBOSS to cut the resulting contigs down a bit, and then combining it with the 454 data in Newbler gets decent results but that was two years ago so I didn't know if there was a higher quality pipeline to go with now.


Last edited by pmart1; 06-30-2014 at 01:35 PM.
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