Bacteriophage Genome Annotation

Reformatted PHROGs database

Reformatting
of the PHROGs database (https://phrogs.lmge.uca.fr/index.php) to allow it to be
used within Prokka directly and output the PHROGS annotations to the “product”
description in genbank files. All annotations are maintained from the PHROGs
database set.

File
is called all_PHROGs.tar.gz

Place
in prokka-1.13-2/db/hmm/ to use
with prokka

Contained within this repository are worked examples for the
assembly and annotation of a bacteriophage genome.

Full detailed instructions are provided as part of the
manuscript “Phage Genome annotation: where to begin and end”

File: SRR13108336_Illumina.tar.gz contains all the files
produced from the intermediary steps in the assembly and annotation of a phage
genome from single end Illumina reads. Originally deposited by Milhaven et al (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8407768/)
and used as an exemplar

File: nanopore_example.tar.gz contains all the files produced from
the intermediary steps in the assembly and annotation of a phage genome from nanopore
data. Originally deposited by D`Souza et al (https://journals.asm.org/doi/10.1128/MRA.00730-20)