PHIST: fast and accurate prediction of prokaryotic hosts from metagenomic viral sequences

SUMMARY: Phage–Host Interaction Search Tool (PHIST) predicts prokaryotic hosts of viruses based on exact matches between viral and host genomes. It improves host prediction accuracy at species level over current alignment-based tools (on average by 3 percentage points) as well as alignment-free and...

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Detalles Bibliográficos
Autores principales: Zielezinski, Andrzej, Deorowicz, Sebastian, Gudyś, Adam
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8826084/
https://www.ncbi.nlm.nih.gov/pubmed/34904625
http://dx.doi.org/10.1093/bioinformatics/btab837
Descripción
Sumario:SUMMARY: Phage–Host Interaction Search Tool (PHIST) predicts prokaryotic hosts of viruses based on exact matches between viral and host genomes. It improves host prediction accuracy at species level over current alignment-based tools (on average by 3 percentage points) as well as alignment-free and CRISPR-based tools (by 14–20 percentage points). PHIST is also two orders of magnitude faster than alignment-based tools making it suitable for metagenomics studies. AVAILABILITY AND IMPLEMENTATION: GNU-licensed C++ code wrapped in Python API available at: https://github.com/refresh-bio/phist. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

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