Phigaro: high-throughput prophage sequence annotation

Bioinformatics. 2020 Jun 1;36(12):3882-3884. doi: 10.1093/bioinformatics/btaa250.


Summary: Phigaro is a standalone command-line application that is able to detect prophage regions taking raw genome and metagenome assemblies as an input. It also produces dynamic annotated 'prophage genome maps' and marks possible transposon insertion spots inside prophages. It is applicable for mining prophage regions from large metagenomic datasets.

Availability and implementation: Source code for Phigaro is freely available for download at along with test data. The code is written in Python.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • High-Throughput Nucleotide Sequencing*
  • Metagenome
  • Metagenomics
  • Prophages* / genetics
  • Software