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Nextomics / NextDenovo

Fast and accurate de novo assembler for long reads
GNU General Public License v3.0
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Only one sample or multiple samples can be used in nextdenovo? #166

Closed Neo-xbx-00 closed 1 year ago

Neo-xbx-00 commented 1 year ago

Question or Expected behavior Hi, following are my two question about the use of nextdenovo. I wonder whether the multiple ccs sequencing files can be derived from several samples, or are supposed to be derived from only one individual? As the animal we would like to get genome is tiny in size, only one animal probably can't produce enough sequencing data. We hope to know if we can use several animals for sequencing and utilize the data from multile sources for assembly? By the way, this kind of animal is wild rather than domestic. The results of genome survey demonstrate the heterozygosity is high (~0.5%); whether this can cause further influence to genome assembly?

Operating system LSB Version: :core-4.1-amd64:core-4.1-noarch Distributor ID: CentOS Description: CentOS Linux release 7.9.2009 (Core) Release: 7.9.2009 Codename: Core

GCC gcc version 4.8.5 20150623 (Red Hat 4.8.5-44) (GCC)

Python Python 3.9.12

NextDenovo nextDenovo v2.5.0.

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moold commented 1 year ago

Hi，Nextdenovo is not optimized for hifi data, so it is not suitable for hifi data by now, so try other assemblers first.