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simroux / ClusterGenomes

Archive for ClusterGenomes scripts
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About the APPLICATION and CITE of this script #2

Open Jiulong-Zhao opened 3 years ago

Jiulong-Zhao commented 3 years ago

Thank you so much for Prof. Roux to provide this script for the clustering of the novel viral sequences! I have two questions that I sincerely want to be answered:

  1. I want to make sure whether this script is applicable for the clustering viral contigs to vOTUs proposed in the reference "Minimum Information about an Uncultivated Virus Genome (MIUViG)" 2018 Nature Biotechnology. ("We suggest standard thresholds of 95% average nucleotide identity over 85% alignment fraction (relative to the shorter sequence)...")
  2. I have really appreciated it for you to provide this script which is easy-to-use. So how should I cite this script?
simroux commented 3 years ago

Hi Jiulong,

  1. Yes, this script is applicable for clustering viral contigs into vOTUs
  2. There is no publication for this tool, so feel free to simply provide the github URL in the Methods section.

Thanks ! Best, Simon

Jiulong-Zhao commented 3 years ago

@simroux Thank you so much, Prof. Roux. Your answers mean a lot to me! Thanks again!