Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study.

ABSTRACT: Owing to technological advances in ancient DNA, it is now possible to sequence viruses from the past to track down their origin and evolution. However, ancient DNA data is considerably more degraded and contaminated than modern data making the identification of ancient viral genomes particularly challenging. Several methods to characterise the modern microbiome (and, within this, the virome) have been developed; in particular, tools that assign sequenced reads to specific taxa in order to characterise the organisms present in a sample of interest. While these existing tools are routinely used in modern data, their performance when applied to ancient microbiome data to screen for ancient viruses remains unknown. In this work, we conducted an extensive simulation study using public viral seq

SUBMITTER: Arizmendi Cardenas YO 

PROVIDER: S-EPMC8958974 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature