How about metagenomics data using NanoCLUST workflow

genomicsITER / NanoCLUST

NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads

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How about metagenomics data using NanoCLUST workflow #9

Closed ray1919 closed 4 years ago

ray1919 commented 4 years ago

If I replace 16s db with bac+fungi+virus genome db, will this workflow appliable to metagenomics Nanopore data?

genomicsITER commented 4 years ago

Hi,

Thank you for contacting us. That is a very interesting question. We would like to test NanoCLUST with shotgun metagenomics soon once we finish with some updates and performance improvements. The parameters are tuned for 1400bp-1600bp reads so changes in the process scripts are needed. This UMAP-HDBSCAN method has been applied in Nanopore metagenomics data by Beaulaurier et al. DOI: 10.1101/619684