Question: Denovo assembly of bacterial genome
0
gravatar for th526
18 months ago by
th5260
th5260 wrote:

Hi, I have done denovo assembly of Salmonella genome using SPAdes. I want to order the contigs and close the gap and finish the genome assembly. Could anyone suggest how to order contigs and close genome assembly. Even reference based genome assembly and finishing the final assembly is also welcome.

Regards Thippesh

assembly • 571 views
ADD COMMENTlink modified 18 months ago by colindaven1.2k • written 18 months ago by th5260
0
gravatar for Sej Modha
18 months ago by
Sej Modha4.1k
Glasgow, UK
Sej Modha4.1k wrote:

Mauve can be used to reorder contigs. You can also use a reference guided scaffolder such as scaffold builder to generate a draft genome assembly

ADD COMMENTlink written 18 months ago by Sej Modha4.1k
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gravatar for colindaven
18 months ago by
colindaven1.2k
Hannover Medical School
colindaven1.2k wrote:

I have used Medusa for this: https://github.com/combogenomics/medusa

ADD COMMENTlink written 18 months ago by colindaven1.2k
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