Microbiome Bioinformatics with QIIME 2

Jan. 8, 2020 - Jan. 10, 2020
Bethesda, Maryland

Members of the QIIME 2 development group, led by Greg Caporaso, will teach a three-day hands-on workshop on bioinformatics tools for microbial ecology. The workshop will include lectures covering basic QIIME 2 usage and theory, and hands-on work with QIIME 2 to perform microbiome analysis from raw sequence data through publication-quality statistics and visualizations. This workshop will also feature several opportunities for attendees to network with other researchers in the field, as well as with QIIME 2 "experts".

Day 1

  • Introduction to QIIME 2
  • Core concepts
  • QIIME 2 types, formats, and metadata
  • Importing and exporting data
  • Demultiplexing and quality control
  • Phylogenetic reconstruction
  • Measuring alpha and beta diversity

Day 2

  • Taxonomic analysis
  • Differential abundance
  • Guest lectures

Day 3

  • Longitudinal analysis
  • Sample classification
  • Breakout sessions: install clinic, data importing, round table discussions, and more!

A poster session will be held on the second evening of the workshop --- attendees are encouraged to showcase their research here. Don't have a study to show? Feel free to use this opportunity to pitch your project to your peers and solicit feedback. Not using QIIME 2 in your study? No worries, we won't judge you! Day three of the workshop will include parallel sessions where students can choose to work with instructors to install QIIME 2 on their computers, begin analysis of their own data in QIIME 2, or cover one of several other contemporary topics in microbiome bioinformatics. This workshop will provide you with the foundation needed to begin using these tools to advance your own microbiome research projects.

Registration is closed - the course is sold out

Please find us on the forum if you have any questions!

Required software

Please bring your laptop to the workshop, as a significant portion of the workshop will be hands-on. Any operating system will work, including Windows, Mac OS X, and Linux. You do not need to install any other software besides what is listed below. There will be power outlets and Wi-Fi available to you at the workshop.

Before the workshop, please install the latest version of the Google Chrome web browser. If you don't have Google Chrome installed, get it here.

If you already have Google Chrome installed, make sure it is the latest version by following these instructions.

Next, install the Secure Shell app for Google Chrome.

After that, try opening this page to ensure that your browser is configured correctly to view Emperor plots. If you get a notice that the page cannot be opened, follow the instructions provided on that page and try the link again.

Hope to see you in Maryland!