Education - Metagenomics Workshop

IGS Metagenome Analysis Workshop

This workshop will provide attendees with in-depth training on analysis of bacterial community sequence data, both whole metagenome shotgun and 16S. Tools for community profiling, gene clustering, and annotation will be explored. An optional 4th day is included in the workshop for those who elect to bring a dataset of their own for analysis.

Included topics

  • Introduction
  • Metadata management
  • Sampling considerations
  • Computational resources and virtual machines
  • 16S analysis and the CloVR-16S pipeline
  • Whole metagenome sequence analysis
  • Data Normalization using CloVR-Diginorm
  • Metagenome Assembly using SOAPdenovo CloVR pipeline
  • Metagenomics annotation using CloVR pipeline
  • Metatranscriptomics
  • Exploration of analysis results on user-supplied data during an optional 4th day of the workshop

Dates and Registration

The registration fee for this workshop is $450 for general rate, $350 for student rate. This includes breakfast and lunch for the two full days of the workshop.

The workshop has concluded, please check back for future dates

Workshop Schedule

The main instructional components of the workshop are covered in the first 2.5 days. The fourth day is optional for people who elect to bring their own data for analysis during the workshop and who wish to spend an extra day working with IGS staff on this data. The workshop will begin in the afternoon of the first day with registration/check-in at 12:30 and the actual content starting at 1:00. Instruction will run from 1:00-5:00 the first day and from 9:00-5:00 the second and third days. Breakfast and lunch will be provided on the second and third days (the two full days). Start and end times will be established for the fourth day once the size of the group that is staying for the 4th day is established. There will be a welcome reception on the evening of the first day from 5:00-6:30.

Location

The course will be held on the University of Maryland Baltimore campus in the BioPark II building at 801 W. Baltimore St. Baltimore, MD 21201 [Google map]. The workshop will be in the "Invent and Advance" conference room on the first floor to the right of the front desk.

Driving Directions

Directions can be found here. Parking is available for $9.00 per day in a garage at the corner of W. Baltimore and Poppleton, this is about 1 block from our building.

Airports

The closest airport is Baltimore Washington International Thurgood Marshall Airport (BWI). Other airports in the region (1 - 1.5 hours away) are Dulles and Reagan National.

Train

Baltimore is served by Amtrak and MARC train service.

Lodging

There are several hotels within easy walking distance to our location at 801 W. Baltimore St. Here are a couple of suggestions that previous attendees have been happy with:

Holiday Inn Baltimore-Inner Harbor (Downtown)
Hampton Inn Baltimore-Downtown-Convention Center

Questions?

Please send any questions to Michelle Giglio (mgiglio AT som.umaryland.edu)