AAIRR16

Analysis of Adaptive Immune Receptor Repertoires

Timetable (provisional)
AAIRR16 Analysis of Adaptive Immune Receptor Repertoires
Wed, Nov 2nd
Day #1
09:30 - 11:00 Self Introductions. Familiarization with the working environment.
Introduction to B and T cell repertoires.
11:00 - 11:30 Coffee Break
11:30 - 12:30 Obtaining data from GenBank and the International Immunogenetics Information System (IMGT).
12:30 - 14:00 Lunch Break
14:00 - 16:00 Processing of sequence data and the use of Jupyter notebooks.
16:00 - 16:30 Tea Break
16:30 - 18:00 Germline assignment.
Thu, Nov 3rd
Day #2
09:30 - 11:00 Morning Wrap-up (what have we done so far?)
Identification of clonal lineages.
11:00 - 11:30 Coffee Break
11:30 - 12:30 Reconstructing germline sequences.
12:30 - 14:00 Lunch Break
14:00 - 16:00 Analysis of repertoire composition.
16:00 - 16:30 Tea Break
16:30 - 18:00 Analysis of B cell somatic hypermutation.
Fri, Nov 4th
Day #3
09:30 - 11:00 Morning Wrap-up (what have we done so far?)
Using Docker containers.
11:00 - 11:30 Coffee Break
11:30 - 12:30 Introduction to the Common Workflow Language (CWL)
12:30 - 14:00 Lunch Break
14:00 - 16:00 Automating workflows with CWL.
16:00 - 16:30 Tea Break
16:30 - 18:00 Functional Profiling from Babelomics 5
Final Wrap-up discussion and conclusion.
Course Homepage

Instituto Gulbenkian de Ciência,

Apartado 14, 2781-901 Oeiras, Portugal

GTPB Homepage

IGC Homepage

Last updated:   August 22nd 2016