Immunoglobulin Clonal Lineage and Diversity Analysis R package alakazam version 1.4.3 CRAN Task View: Omics (https://CRAN.R-project.org/view=Omics) Provides methods for high-throughput adaptive immune receptor repertoire sequencing (AIRR-Seq; Rep-Seq) analysis. In particular, immunoglobulin (Ig) sequence lineage reconstruction, lineage topology analysis, diversity profiling, amino acid property analysis and gene usage. Citations: Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>, Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>. Software Depends: R (>= 4.0), ggplot2 (>= 3.4.0) Imports: airr (>= 1.4.1), ape, dplyr (>= 1.0), graphics, grid, igraph (>= 1.5.0), Matrix (>= 1.3-0), methods, progress, Rcpp (>= 0.12.12), readr, rlang, scales, seqinr, stats, stringi, tibble, tidyr (>= 1.0), utils, Biostrings (>= 2.56.0), GenomicAlignments (>= 1.24.0), IRanges (>= 2.22.2) LinkingTo: Rcpp Suggests: cigarillo, knitr, rmarkdown, testthat Susanna Marquez <susanna.marquez@yale.edu> Comprehensive R Archive Network (CRAN) Susanna Marquez [cre, aut], Namita Gupta [aut], Nima Nouri [aut], Ruoyi Jiang [aut], Julian Zhou [aut], Kenneth Hoehn [aut], Daniel Gadala-Maria [ctb], Edel Aron [ctb], Cole Jensen [aut], Gisela Gabernet [ctb], Caroline Sullivan [ctb], Hailong Meng [ctb], Huimin Lyu [ctb], Burhan Sabuwala [ctb], Jason Vander Heiden [aut], Steven Kleinstein [aut, cph] AGPL-3 2026-04-29 application/tgz https://CRAN.R-project.org/package=alakazam doi:10.32614/CRAN.package.alakazam