# ClustIRR: Clustering of Immune Receptor Repertoires ## Overview ClustIRR is a quantitative method for *clustering* of immune receptor repertoires (IRRs). The algorithm identifies groups of T or B cell receptors (TCRs or BCRs) that likely have the same antigen specificity. This is achieved by comparing *global* and *local* sequence features of the complementarity determining regions (CDRs) of TCRs and BCRs. Once the specificity groups are identified in a set of IRRs, the algorithm identifies clusters and performs a quantitative comparison of the cluster abundances between biological conditions. ## How to use ClustIRR ClustIRR is an R-package available from Bioconductor: https://bioconductor.org/packages/ClustIRR/ To install this package, start R and enter: ```r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("ClustIRR") ``` To use the development version of ClustIRR you can install it from Github. To do this, start R and enter: ```r library(devtools) install_github("snaketron/ClustIRR") ``` Case studies are provided in the directory /vignettes ## Workflow & output