First PPEM Bioinformatics Workshop Held
Posted: July 15, 2016
The first Department of Plant Pathology and Environmental Microbiology (PPEM) Bioinformatics Workshop, a beginner’s guide to basic sequence analysis, was held July 11–15 in the Millennium Science Complex for sixteen participating PPEM graduate students and postdocs.
The workshop was organized and taught by postdoctoral researcher Anthony Stobbe (Marilyn Roossinck Lab) in collaboration with computational scientists Philipp Ross (Manuel Llinás Lab) and Daniel Renner (Moriah Szpara Lab), all from the Center for Infectious Disease Dynamics (CIDD), The Huck Institutes of the Life Sciences.
During the workshop participants learned about:
- Command line and an introduction to data management;
- Basic assembly and genome alignments;
- The use of reference databases;
- An introduction to phylogeny, especially bayesian phylogeny;
- Single nucleotide polymorphism (SNP) calling tools;
- How to work with metagenomic data.
During the last session workshop leaders enabled attendees to use and work on their own data.