Instructors: Dr. Adina Howe, Iowa State University; Dr. Ashley Shade Microbiology and Molecular Genetics; Dr. Tracy Teal, Data Carpentry
Course email: firstname.lastname@example.org
Location: Kellogg Biological Station
Dates: June 24-30, 2018 Description: EDAMAME is an intensive, hands-on course in microbial metagenome analyses, covering workflows from raw sequence analysis through to multivariate statistics and ecological interpretation.
Cost: The course will cost $696, inclusive of room and meals at KBS and instruction.
EDAMAME Learning Goals:
- Increase computing literacy
- Develop proficiency in cloud computing
- Analyze microbial amplicon sequences
- Analyze microbial shotgun metagenome sequences
- Apply ecological statistics to analyze and interpret microbial sequencing data
- Access resources provided by public sequence databases
About the course instructors
Dr. Adina Howe is an assistant professor in the Department of Agricultural and Biosystems Engineering at Iowa State University. Her research focuses on integrating traditional microbiology approaches with metagenomics and computational biology as investigative tools to understand environmental microbial populations. She enjoys programming and teaching others about how she learned to do it. You’ll often find her playing volleyball, ultimate frisbee, or hanging out with her family and dogs.
Dr. Ashley Shade is an assistant professor in the Department of Microbiology and Molecular Genetics at Michigan State University. She has been leading the EDAMAME workshop since 2014. Ashley has a Delta Certificate from the University of Wisconsin in Teaching-as-Research, and her teaching strategy involves continuous classroom feedback and student-directed, active learning. Ashley is especially smitten with numerical ecology and multivariate analyses, and she speaks fluent R. She often is pondering how rare microbial taxa contribute to their communities. Ashley also loves tea, fermentation, Broadway, her snarky dog, and her awesome toddler (listed in no particular order).
Taylor Dunivin is a PhD candidate in the departments of Microbiology & Molecular Genetics and Environmental Toxicology in Ashley Shade’s lab at Michigan State University.
Her research focuses on using metagenomic analysis to understand arsenic and antibiotic resistance gene dynamics in soil microbial communities. She likes cooking, hiking, yoga, and fizzy water.
Dr. Tracy K. Teal is the Executive Director of Data Carpentry and an adjunct Assistant Professor in BEACON at Michigan State. Through Data Carpentry she is working to train researchers in more effective and reproducible data analysis and management. She is developing open-source bioinformatics tools for metagenomic analysis, and her research focuses on understanding how agricultural practices affect soil microbial communities and how those communities might affect changes in the production and consumption of greenhouse gases. She likes the soil and computers, but not together, and climbing mountains when she gets a chance.
2017 course instructors, teaching assistants, and guest lecturers
- Jin Choi (Iowa State)
- Phil Colgan (Iowa State)
- Taylor Dunivin (Michigan State)
- Jared Flater (Iowa State)
- Nicole Ricker (Iowa State)
- Schuyler Smith (Iowa State)
Jackson Sorenson (Michigan State)
- Heather Allen (USDA-ARS)
- Pat Schloss (University of Michigan)
- James Tiedje (Michigan State)