HLAtools: Toolkit for HLA Immunogenomics

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 [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

Documentation:

Reference manual:	HLAtools.pdf
Vignettes:	HLAtools (source, R code)

Downloads:

Package source:	HLAtools_1.3.0.tar.gz
Windows binaries:	r-devel: HLAtools_1.3.0.zip, r-release: HLAtools_1.3.0.zip, r-oldrel: HLAtools_1.3.0.zip
macOS binaries:	r-release (arm64): HLAtools_1.3.0.tgz, r-oldrel (arm64): HLAtools_1.3.0.tgz, r-release (x86_64): HLAtools_1.3.0.tgz, r-oldrel (x86_64): HLAtools_1.3.0.tgz
Old sources:	HLAtools archive

Reverse dependencies:

Reverse imports:

SSHAARP

Linking:

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