The Immcantation Suite - A Collection of Open Source Software Tools to Study Antibodies

Explore a 15-minute Docker Community All-Hands replay featuring Susanna Marquez's talk on the Immcantation suite, an open-source collection of Python and R tools for antibody research. Learn about this Yale University-developed software designed to analyze large genetic datasets of antibodies, aiding in the advancement of immune system understanding. Discover how Immcantation translates genetic codes into valuable immunological knowledge, covering topics such as B cells, BCRs, antibody repertoires, VDJ recombination, and clonal expansion. Gain insights into the suite's capabilities, including processing AIRR-seq reads, VDJ gene assignment, genotyping, and phylogenetic analysis. Understand how this versatile tool, available as a versioned Docker container, facilitates computational immunology research and contributes to our comprehension of immune responses in health and disease.

Intro
Outline
Kleinstein Lab
Computational immunology
The Immcantation suite
B cells, BCRs, antibodies and repertoires
V DJ recombination
Clonal expansion and SHM
Examples
Processing of raw AIRR-seq reads
VD J gene assignment
Genotyping
Clonal expansions
Repertoire properties
SHM and selection
Phylogenetic analysis
immcantation/suite