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ruanjue / wtdbg2

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
GNU General Public License v3.0
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Racon and Pilon #160

Closed mictadlo closed 4 years ago

mictadlo commented 4 years ago

Hi, After finishing the assembly should I run Racon and then Pilon?

Thank you in advance,

Michal

ruanjue commented 4 years ago

Two options, the first is polishing consensus sequences with wtpoa-cns again and again using short reads, the second is running racon or pilon.

mictadlo commented 4 years ago

Which approach do you think is better?

ruanjue commented 4 years ago

I prefer to use wtpoa-cns, but very little comparsion.

mictadlo commented 4 years ago

How many rounds of wtpoa-cns do you do? Does wtpoa-cns replace aslo Pilon for you?

ruanjue commented 4 years ago

After generate raw contigs from wtpoa-cns, one round of long reads is ok, then two or three rounds of short reads.