alakazam: Immunoglobulin Clonal Lineage and Diversity Analysis

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>.

Package details

AuthorSusanna 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 [ctb], Jason Vander Heiden [aut], Steven Kleinstein [aut, cph]
Bioconductor views AnnotationData Software
MaintainerSusanna Marquez <susanna.marquez@yale.edu>
LicenseAGPL-3
Version1.3.0
URL https://alakazam.readthedocs.io/
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:
install.packages("alakazam")

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alakazam documentation built on Sept. 30, 2023, 9:07 a.m.