We will be offering mothur and R workshops throughout 2019. Learn more.
Throughout 2019, Pat will offer 6 workshops on mothur and programming in R for microbial ecologists. If you are interested in attending and would like to register or get more information about fees and specifics, please email him his gmail account (userid: pdschloss)
- March 6-8: mothur
- May 1-3: R
- June 5-7: mothur
- August 28-30: R
- October 16-18: TBD
- December TBD: mothur
This workshop is geared towards people with diverse backgrounds so you shouldn't feel like this isn't for you if you are a beginner. I assume no previous computer programming experience. The workshop is an even blend of lecture/discussion and hands on use of mothur with real sequence data. Here is a rough outline of what the workshop schedule will look like (although it is subject to some minor changes)...
- Overview of methods used in microbial ecology
- DNA sequencing technologies (Sanger, 454, Illumina, IonTorrent, PacBio)
- Introduction to mothur, command line interface, and GUI
- Improving sequence quality
- Chimera detection
- Distance calaculations
- Amplicon sequence variants
- OTU identification
- Sequence/OTU classification
- Intro to microbial ecology
- Methods of measuring alpha and beta diversity
- Population level analyses
This workshop is being filled on a first come, first served basis. The workshop is geared towards people with interests in microbial ecology that would like to learn R or to learn it better so you shouldn't feel like this isn't for you if you are a beginner. I assume no previous computer programming experience. The workshop is an even blend of lecture/discussion and hands on use of R with real data and typically uses mothur output files as a starting point. It is taught around the generation of data visualization methods commonly used by microbial ecologists. Along the way we'll learn a number of ways to work with data from within R. Here is a rough outline of what the workshop schedule will look like (it is subject to some minor changes)...
- Stripcharts and box and whisker plots
- Line plots
- Subsetting data
- Reading and writing data
- Basic parametric and non-parametric analyses
The workshop will give you a pretty thorough set of working examples for how to use packages like readr, dplyr, and ggplot2 with data from mothur; however, prior knowledge of mothur is not a prerequisite.