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mahulchak / quickmerge

A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
GNU General Public License v3.0
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Quickmerge before or after haplotype purging for high heter rate plant assemblies? #57

Open xiekunwhy opened 4 years ago

xiekunwhy commented 4 years ago

Hi,

For a high heter rate (> 2%) plant genome, I got a hybrid assembly (BUSCO C ~84% D ~26%) and a ONT(~30X) alone assembly (BUSCO C ~80% D ~14%).

Should I need to remove redundance sequences before runing quickmerge ?

Best, Kun

mahulchak commented 4 years ago

Hi Kun,

It is better to remove the redundant sequences, although probably not necessary. Perhaps try it without removing them and see what happens. But removal of the redundant sequences will surely make things cleaner.

On Wed, Jun 3, 2020 at 7:56 PM xiekunwhy notifications@github.com wrote:

Hi,

For a high heter rate (> 2%) plant genome, I got a hybrid assembly (BUSCO C ~84% D ~26%) and a ONT(~30X) alone assembly (BUSCO C ~80% D ~14%).

Should I need to remove redundance sequences before runing quickmerge ?

Best, Kun

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