Testing the advantages and disadvantages of short- and long- read eukaryotic metagenomics using simulated reads

摘要

Recall is consistently higher in bacteria and fungi than plants or animals for both short Illumina and Nanopore reads. Each panel shows recall for the different kingdoms. Median recall at the genus level across each panel is shown by blue (Nanopore) or red (PacBio), and black (Illumina). Dashed lines indicate recall rates for reads classified using Kraken2; solid for reads classified using BLAST. Illumina reads exhibit consistently higher recall, followed by PacBio; bacteria and fungi exhibit higher recall than plants or animals