ProbeTools: designing hybridization probes for targeted genomic sequencing of diverse and hypervariable viral taxa.

ABSTRACT:

Background

Sequencing viruses in many specimens is hindered by excessive background material from hosts, microbiota, and environmental organisms. Consequently, enrichment of target genomic material is necessary for practical high-throughput viral genome sequencing. Hybridization probes are widely used for enrichment in many fields, but their application to viral sequencing faces a major obstacle: it is difficult to design panels of probe oligo sequences that broadly target many viral taxa due to their rapid evolution, extensive diversity, and genetic hypervariability. To address this challenge, we created ProbeTools, a package of bioinformatic tools for generating effective viral capture panels, and for assessing coverage of target sequences by probe panel designs in silico. In thi

SUBMITTER: Kuchinski KS 

PROVIDER: S-EPMC9371634 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature