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lh3 / miniasm

Ultrafast de novo assembly for long noisy reads (though having no consensus step)
MIT License
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miniasm over corrected long reads #20

Closed ythuang0522 closed 7 years ago

ythuang0522 commented 7 years ago

Hi Heng,

If we want to run miniasm over a set of error-corrected long reads (~99% accuracy), which parameters would you recommend us to adjust? as mniasm seems to be optimized for overlapping noisy long reads. It looked to us the -k (kmer=15bp) and -r (bandwidth=500) in minimap stage, and -i (min identity [0.05]) and -I (min end-to-end match ratio [0.8]) in miniasm stage, might be worth trying but we are not sure. Your comments will be highly appreciated.

Thanks, Yao-Ting

ythuang0522 commented 7 years ago

Sorry i overlook the closed issue of the same question.