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README.md

Metagenomic Analysis using Phylogeny-Aware Profiles

Instructor: Tandy Warnow
Teaching Assistant: Mike Nute

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

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.
  • Download SEPP/TIPP reference packages. The current packages are partly tested but do not have a permanent home, but they are temporarly on Dropbox.

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