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isovic / racon

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116 Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:
https://github.com/lbcb-sci/racon
MIT License
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Question for polishing #154

Closed Tdanis closed 4 years ago

Tdanis commented 4 years ago

Hello again,

I have got one question about assembly-polishing pipeline. I am going to use racon after assembly construction. So could you help me which one command have I to use with minimap2? map-ont or ava-ont (my dataset is Nanopore)

Thank you for your help

rvaser commented 4 years ago

Hi again, if you want to polish the assembly, you need to pass -x map-ont to minimap2. If you want to error correct your reads with each other, pass -x ava-ont.

Best regards, Robert