CoronaSPAdes: from biosynthetic gene clusters to RNA viral assemblies.

ABSTRACT:

Motivation

The COVID-19 pandemic has ignited a broad scientific interest in viral research in general and coronavirus research in particular. The identification and characterization of viral species in natural reservoirs typically involves de novo assembly. However, existing genome, metagenome and transcriptome assemblers often are not able to assemble many viruses (including coronaviruses) into a single contig. Coverage variation between datasets and within dataset, presence of close strains, splice variants and contamination set a high bar for assemblers to process viral datasets with diverse properties.

Results

We developed coronaSPAdes, a novel assembler for RNA viral species recovery in general and coronaviruses in particular. coronaSPAdes leverages the knowledge about

SUBMITTER: Meleshko D 

PROVIDER: S-EPMC10060723 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature