https://github.com/ANHIG/IMGTHLA>, validate Genotype List (GL) Strings, convert between UNIFORMAT and GL String Code (GLSC) formats, translate HLA alleles and GLSCs across ImmunoPolymorphism Database (IPD) IMGT/HLA Database release versions, identify differences between pairs of alleles at a locus, generate customized, multi-position sequence alignments, trim and convert allele-names across nomenclature epochs, and extend existing data-analysis methods.">

HLAtools: Toolkit for HLA Immunogenomics (original) (raw)

A toolkit for the analysis and management of data for genes in the so-called "Human Leukocyte Antigen" (HLA) region. Functions extract reference data from the Anthony Nolan HLA Informatics Group/ImmunoGeneTics HLA 'GitHub' repository (ANHIG/IMGTHLA) <https://github.com/ANHIG/IMGTHLA>, validate Genotype List (GL) Strings, convert between UNIFORMAT and GL String Code (GLSC) formats, translate HLA alleles and GLSCs across ImmunoPolymorphism Database (IPD) IMGT/HLA Database release versions, identify differences between pairs of alleles at a locus, generate customized, multi-position sequence alignments, trim and convert allele-names across nomenclature epochs, and extend existing data-analysis methods.

Version: 1.3.0
Depends: R (≥ 3.5.0)
Imports: DescTools, dplyr, stringr, tibble, utils, xfun, fmsb
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0)
Published: 2024-11-14
DOI: 10.32614/CRAN.package.HLAtools
Author: Livia Tran [aut], Ryan Nickens [aut], Leamon Crooms IV [aut], Derek Pappas [aut], Vinh Luu [ctb], Josh Bredeweg [ctb], Steven Mack ORCID iD [aut, cre]
Maintainer: Steven Mack <Steven.Mack at ucsf.edu>
License: GPL (≥ 3)
URL: <https://github.com/sjmack/HLAtools>
NeedsCompilation: no
Materials: README NEWS
CRAN checks: HLAtools results

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