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hlaR: Tools for HLA Data

A streamlined tool for eplet analysis of donor and recipient HLA (human leukocyte antigen) mismatch. Messy, low-resolution HLA typing data is cleaned, and imputed to high-resolution using the NMDP (National Marrow Donor Program) haplotype reference database <https://haplostats.org/haplostats>. High resolution data is analyzed for overall or single antigen eplet mismatch using a reference table (currently supporting 'HLAMatchMaker' <http://www.epitopes.net> versions 2 and 3). Data can enter or exit the workflow at different points depending on the user's aims and initial data quality.

Version: 1.0.0
Depends: R (≥ 4.1.0)
Imports: devtools, tidyverse, dplyr, reshape2, schoolmath, tibble, tidyselect, stringr, purrr, tidyr, utils, readr, janitor
Suggests: knitr, rmarkdown
Published: 2023-01-31
DOI: 10.32614/CRAN.package.hlaR
Author: Joan Zhang [aut, cre], Aileen Johnson [aut], Christian P Larsen [cph, aut]
Maintainer: Joan Zhang <joan.zhang at emory.edu>
BugReports: https://github.com/LarsenLab/hlaR/issues
License: MIT + file LICENSE
URL: https://pubmed.ncbi.nlm.nih.gov/35101308/, https://emory-larsenlab.shinyapps.io/hlar_shiny/
NeedsCompilation: no
CRAN checks: hlaR results

Documentation:

Reference manual: hlaR.pdf
Vignettes: Imputation
Eplet Mismatch

Downloads:

Package source: hlaR_1.0.0.tar.gz
Windows binaries: r-devel: hlaR_1.0.0.zip, r-release: hlaR_1.0.0.zip, r-oldrel: hlaR_1.0.0.zip
macOS binaries: r-release (arm64): hlaR_1.0.0.tgz, r-oldrel (arm64): hlaR_1.0.0.tgz, r-release (x86_64): hlaR_1.0.0.tgz, r-oldrel (x86_64): hlaR_1.0.0.tgz
Old sources: hlaR archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=hlaR to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.