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

ABSTRACT:

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.

SUBMITTER: Zielezinski A

PROVIDER: S-EPMC8826084 | biostudies-literature | 2022 Feb

REPOSITORIES: biostudies-literature

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

Zielezinski Andrzej A Deorowicz Sebastian S Gudyś Adam A

Bioinformatics (Oxford, England) 20220201 5

<h4>Summary</h4>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.<h4>Availability and impleme ...[more]

PMID: 34904625

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