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lbcb-sci / racon

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
MIT License
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racon use large memory than that in raven #68

Open xiekunwhy opened 2 years ago

xiekunwhy commented 2 years ago

Hi,

I found that racon use much more memory (several times) than the racon module in raven, why? And can we use raven as a polisher?

Best, Kun

rvaser commented 2 years ago

Hi Kun, in Raven the sequences are stored compressed at all times (qualities are reduced to averages of 64 bases). There were plans to propagate that to Racon as well, replacing the quality compression with something better, but I never got the time to do it.

In current form, polishing part of Raven cannot be used separately.

Best regards, Robert

xiekunwhy commented 2 years ago

I see, thank you for your reply, and I am waiting for low memory cost racon version.

Best regards, Kun