Hello,
I'm trying to merge a bacterial genome assembly done by myself with Velvet with another I got from partner.
Both assemblies data come from Illumina MiSeq platform (Paired End).
I've a very good assembly, like 60~ contigs (89% genome) at this moment. I would like to use the other assembly (260~ contigs) to try filling the gaps between my contigs if it's possible so I can achieve an even better assembly.
I've tried CISA but I don't really get any better results. I don't know if there's a better method or software for merging both assemblies.
The only idea I've left is to ask my partner for rawdata files, perform myself different assemblies with his rawdata using different software like Velvet and Spades. Then try to merge them with CISA and my original assembly.
Any suggestions are welcome.
I'm trying to merge a bacterial genome assembly done by myself with Velvet with another I got from partner.
Both assemblies data come from Illumina MiSeq platform (Paired End).
I've a very good assembly, like 60~ contigs (89% genome) at this moment. I would like to use the other assembly (260~ contigs) to try filling the gaps between my contigs if it's possible so I can achieve an even better assembly.
I've tried CISA but I don't really get any better results. I don't know if there's a better method or software for merging both assemblies.
The only idea I've left is to ask my partner for rawdata files, perform myself different assemblies with his rawdata using different software like Velvet and Spades. Then try to merge them with CISA and my original assembly.
Any suggestions are welcome.
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