Schedule

From STAMPS

This schedule is subject to change!

NOTE: Times of meals and morning/afternoon breaks are approximate!

All Lectures and Labs are in Loeb G70

First Week

Monday
30 July
Tuesday
31 July
Wednesday
1 August
Thursday
2 August
Friday
3 August
9:00-12:00 Bootcamp: Code of conduct, UNIX, MBL infrastructure.

Introduction to MBL (note: in Lillie auditorium)


Bootcamp: Metagenomics approaches, course structure

OTU Clustering and workflow (Amy Willis)


Amplicon sequence variant assignment--DADA2 (Susan Holmes)

Statistical estimation: alpha diversity, beta diversity, differential abundance (Amy Willis)

Network analysis (Christian Müller)

12:00-14:00 Lunch break
Lunch break
Lunch break
Lunch break
Lunch break
14:00-17:00

Bootcamp: R (Tracy Teal)

Bootcamp: Statistics and R (Amy Willis)

Taxonomic annotation and phylogeny (Tandy Warnow)

Documentation and Interaction with RStudio, Shiny (JJ)

Exploratory multivariate visualization(Susan Holmes)

Introduction to genome assembly (Titus Brown/Todd Treangen)

17:00-19:00 Dinner break (variable)
19:00-22:00

Open lab: Unix and R, bioinformatics workflows


Open lab: Unix and R

Project introductions


Heterogeneous Data: Susan Holmes


Open lab

Lecture


Open lab


Second Week

Saturday
4 August
Sunday
5 August
Monday
6 August
Tuesday
7 August
Wednesday
8 August
09:00-12:00

QIIME2 (Rob Knight)

Open Day


Assembly: reference-guided, strain resolution (Todd Treangen)


Assembly: binning (Christian Müller)


Comparative metagenomics (k-mer based approaches, etc.) (Titus Brown)


Presentations by student groups

12:00-14:00 Lunch break
Lunch break
Lunch break
Check Out/departure
14:00-17:00

QIIME2 (Rob Knight)

Strain-level analyses (Titus Brown, Todd Treangen)


Functional analyses (Curtis Huttenhower)


17:30-19:00 Dinner break (variable)
19:00-22:00

Open Lab

Lecture


Open Lab

Open Lab