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NGS workflows

Hello,
I'm trying to assembly a genome and I'd like to know if the following workflows are correct:
1) fastqc - velveth - velvetg - mauve ordering with a reference genome - mauve metrics
2) fastqc - velveth - velvetg - reapr to assess quality and close gap - mauve ordering with a reference genome - mauve

metrics
3) fastqc - abyss - mummer -reapr.

Can you give me any suggestion about the above workflows?
Do you know any other efficent workflow to assembly and evalute a bacterial genome?

Thanks in advance

assembly
• 2,174 views • link
updated by Ram Ram • written by Jamand Jamand

1 answer

Hello,

You can use Newbler 2.8 or Platanus Assembly. They are efficient for Bacterial Genomes.

• 0 views • link
updated by Ram Ram • written by midox midox

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