Prophage prediction tool

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9 months ago

A_heath ▴ 160

Hi all,

As PHASTER web-servers are currently out of use, I would still like to be able to predict prophage regions within a bacterial genome. Note that this genome is fragmented into multiple contigs.

I tried DBSCAN-SWA, Virsorter or PhaMer but I get results that are not comparable to PHASTER, either in terms of the prediction itself or results visualization.

Do you have any other suggestions, please?

Many thanks for your help!

prophage PHASTER prediction • 719 views

ADD COMMENT • link updated 9 months ago by GenoMax 141k • written 9 months ago by A_heath ▴ 160

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Are you sure the web server is offline? It seems to be up and serving pages.

ADD REPLY • link 9 months ago by GenoMax 141k

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Thanks for your reply GenoMax. When I try to upload any genome, I get the following error message: enter image description here

Even trying on different computers, the same message appears as the servers seem off.

ADD REPLY • link 9 months ago by A_heath ▴ 160

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Have you used the email link to let them know along with the jobID?

ADD REPLY • link 9 months ago by GenoMax 141k

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Of course, but I haven't got a response from their side. Hence why I am looking for another tool to be able to predict prophage sequences within bacterial genomes.

ADD REPLY • link 9 months ago by A_heath ▴ 160

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Perhaps contacting Dr. Wishart directly may help. You can easily find out the email by following links on PHASTER page. Post-docs/students move on and sometime a PI may not even realize that a tool from their lab is orphaned.

ADD REPLY • link 9 months ago by GenoMax 141k

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