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Metagenomic Analysis using Phylogeny-Aware Profiles

Instructor: Tandy Warnow
Teaching Assistant: Erin Molloy

Learn how to analyze metagenomic datasets with the SEPP (SATe-Enabled Phylogenetic Placement) and TIPP (Taxonomic Identification and Phylogenetic Profiling) software programs!

This tutorial includes

  • Lecture slides 2017, 2018
  • Hands-on worksheet 2017 -- written for the installation of SEPP/TIPP on the MLB servers for STAMPS 2017

Please flag us down when you have questions, we are happy to help!

In the future, you may wish to

  • Downloaded SEPP/TIPP from here.
  • Work through additional tutorials found here.

Citations

Mirarab, S., N. Nguyen, and T. Warnow. (2012). SEPP: SATe-Enabled Phylogenetic Placement. Proceedings of the 2012 Pacific Symposium on Biocomputing (PSB 2012) 17:247-258. doi:10.1142/9789814366496_0024

Nguyen, N., S. Mirarab, B. Liu, M. Pop, and T. Warnow (2014). TIPP:Taxonomic Identification and Phylogenetic Profiling. Bioinformatics 30(24):3548-3555. doi:10.1093/bioinformatics/btu721

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