PHASTER (PHAge Search Tool Enhanced Release) is a significant upgrade to the popular PHAST web server for the rapid identification and annotation of prophage sequences within bacterial genomes and plasmids,. While the steps in the phage identification pipeline in PHASTER remain largely the same as in the original PHAST, numerous software improvements and significant hardware enhancements have now made PHASTER faster, more efficient, more visually appealing and much more user friendly. In particular, PHASTER is now 4.3X faster than PHAST when analyzing a typical bacterial genome. More specifically, software optimizations have made the backend of PHASTER 2.7X faster than PHAST. Likewise, the addition of more than 70 CPUs to the PHASTER compute cluster have greatly reduced processing times. PHASTER can now process a typical bacterial genome in 3 minutes from the raw sequence alone, or in 1.5 minutes when given a pre-annotated GenBank file. A number of other optimizations have been implemented, including automated algorithms to reduce the size and redundancy of PHASTER’s databases, improvements in handling multiple (metagenomic) queries and high user traffic, and the ability to perform automated look-ups against >14,000 previously PHAST/PHASTER annotated bacterial genomes (which can lead to complete phage annotations in seconds as opposed to minutes). PHASTER’s web interface has also been entirely rewritten. A new graphical genome browser has been added, gene/genome visualization tools have been improved, and the graphical interface is now more modern, robust, and user-friendly.


Have lots of sequences to run? Try our URL API.

Please cite the following:

Arndt, D., Grant, J., Marcu, A., Sajed, T., Pon, A., Liang, Y., Wishart, D.S. (2016) PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res., 2016 May 3.

Zhou,Y., Liang,Y., Lynch,K.H., Dennis,J.J. and Wishart,D.S. (2011) PHAST: a fast phage search tool. Nucleic Acids Res., 39, W347–W352.

Notice
Please note: A bug that prevented some BLAST searches from completing has adversely affected predictions for submissions made from Nov 15th to 25th, and to a much smaller extent for submissions from Aug 25th to Nov 14th. The impact was smaller predicted phage regions, or in some cases missing phage region predictions. Please re-submit your sequences. We sincerely apologize for this issue.

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