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I would like to use PHASTER (http://phaster.ca) from the University of Alberta, but it's currently down for maintenance, as is its predecessor, PHAST.

What alternatives to PHASTER are there for searching and annotating phage sequences within assembled genomes?

EDIT:

I have seen that PROKKA has some entries mentioning the possibility of using PHASER (currently discarded as an option) but also people using their own HMMs to annotate phage sequences using PROKKA, e.g.: https://github.com/tseemann/prokka/issues/375

Any ideas?

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    $\begingroup$ Phigaro github.com/bobeobibo/phigaro, Virsorter $\endgroup$
    – Chris_Rands
    Aug 29, 2019 at 3:06
  • $\begingroup$ Thanks @Chris_Rands , I had a look at phigaro, and I like the fact that the pVOG families give an annotation for things like tail fiber proteins and the rest. Useful. $\endgroup$
    – 719016
    Sep 3, 2019 at 12:24

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The answer is to use phastaf, a recently developed software tool developed by Torsten Seemann (the same developer as prokka), which comes with a packaged phaster.ca db. Get it here

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  • $\begingroup$ Thanks, I will have a look. $\endgroup$
    – 719016
    Sep 3, 2019 at 12:24

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