Strategies and Techniques for Analyzing Microbial Population Structures (STAMPS)

Special Topics Course at the Marine Biological Laboratory
Course Schedule: August 5 – August 15, 2015
Application Deadline: April 8, 2015
Directors: Mitchell L. Sogin and David B. Mark Welch
Topics to be covered include but are not limited to acquisition and organization of next generation sequence data; principles of quality control of sequence data and data management; methods of taxonomic assignment and clustering of targeted gene data; assembly, functional classification and characterization of shotgun metagenomic data; statistical models for estimating microbial diversity; and microbial community comparison methodology and metrics. The workshop also includes an introduction to the Linux command-line and R statistical environments. The lectures will be augmented by a computer laboratory where students will have the opportunity to use state of the art facilities to test theoretical concepts described in the lectures series. Guided by authors of resources including CatchAll, LEfSe, mothur, Oligotyping, MetaPathways, MetaPhlAn, PhyloSeq, QIIME, USEARCH, Unifrac, and VAMPS, participants in the workshop will have the opportunity to compare different analysis techniques for molecular data, analyze their own data, and discuss their data and analyses with faculty.  The course is designed for established investigators, postdoctoral fellows and advanced graduate students from diverse biological fields.