We will be offering mothur and R workshops throughout 2019. Learn more.

Difference between revisions of "Workshops"

From mothur
Jump to: navigation, search
(mothur workshop)
Line 25: Line 25:
 
* Chimera detection
 
* Chimera detection
 
* Distance calaculations
 
* Distance calaculations
 +
* Amplicon sequence variants
 
* OTU identification
 
* OTU identification
 
* Sequence/OTU classification
 
* Sequence/OTU classification
Line 32: Line 33:
 
* Methods of measuring alpha and beta diversity
 
* Methods of measuring alpha and beta diversity
 
* Population level analyses
 
* Population level analyses
 
  
 
==R Workshop==
 
==R Workshop==

Revision as of 11:52, 25 March 2019

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


mothur workshop

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)...


Day 1:

  • 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
  • Alignment

Day 2:

  • Chimera detection
  • Distance calaculations
  • Amplicon sequence variants
  • OTU identification
  • Sequence/OTU classification

Day 3:

  • Intro to microbial ecology
  • Methods of measuring alpha and beta diversity
  • Population level analyses

R Workshop

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)...

  • Ordination
  • Stripcharts and box and whisker plots
  • Line plots
  • Barcharts
  • Subsetting data
  • Reading and writing data
  • Basic parametric and non-parametric analyses