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PSORTm - a PSORT tool for metagenomic data

PSORTm is a modified version of PSORTb 3.0.3 for protein subcellular localization prediction (SCL), and PSORTdb-based cell envelope classification, that can predict protein SCL from metagenomic sequences. For more information, see the documentation.

Note that unlike PSORTb, PSORTm does not have a web server due to the large size of metagenomic datasets. However, it is available for download in 2 different Docker containers (what is docker?). Which of these you choose to install will depend on how you want to input your metagenomic sequences:

Web Service Access: This container allows you to access PSORTm using a web browser

  • Prebuilt container: https://hub.docker.com/r/brinkmanlab/psortm
  • Container code (for custom build): https://github.com/brinkmanlab/psortm-docker

    • Command-line Access: This Docker container allows you to run PSORTm directly from the Linux command line

  • Prebuilt container: https://hub.docker.com/r/brinkmanlab/psortm_commandline
  • Container code (for custom build): https://github.com/brinkmanlab/psortm_commandline_docker
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    PSORTm is maintained by the Brinkman Laboratory, Simon Fraser University, British Columbia, Canada. If you would like to use PSORTm in your research, we would greatly appreciate if you cite the following publication:
    • Peabody, M.A., Lau, W.Y.V., Hoad, G., Jia, B., Maguire, F., Gray, K.L., Beiko, R.G. & Brinkman, F.S.L. (2020). PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data. Bioinformatics. doi: 10.1093/bioinformatics/btaa136