Package: midasHLA
Title: R package for immunogenomics data handling and association
        analysis
Version: 1.19.0
Authors@R: c(
  person("Christian", "Hammer", email = "hammerc6@gene.com", role = "aut"),
  person("Maciej", "Migdał", email = "mcjmigdal@gmail.com", role = c("aut", "cre")))
Description: MiDAS is a R package for immunogenetics data
        transformation and statistical analysis. MiDAS accepts input
        data in the form of HLA alleles and KIR types, and can
        transform it into biologically meaningful variables, enabling
        HLA amino acid fine mapping, analyses of HLA evolutionary
        divergence, KIR gene presence, as well as validated HLA-KIR
        interactions. Further, it allows comprehensive statistical
        association analysis workflows with phenotypes of diverse
        measurement scales. MiDAS closes a gap between the inference of
        immunogenetic variation and its efficient utilization to make
        relevant discoveries related to T cell, Natural Killer cell,
        and disease biology.
License: MIT + file LICENCE
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.1), MultiAssayExperiment (>= 1.8.3)
Imports: assertthat (>= 0.2.0), broom (>= 0.5.1), dplyr (>= 0.8.0.1),
        formattable (>= 0.2.0.1), HardyWeinberg (>= 1.6.3), kableExtra
        (>= 1.1.0), knitr (>= 1.21), magrittr (>= 1.5), methods,
        stringi (>= 1.2.4), rlang (>= 0.3.1), S4Vectors (>= 0.20.1),
        stats, SummarizedExperiment (>= 1.12.0), tibble (>= 2.0.1),
        utils, qdapTools (>= 1.3.3)
Suggests: broom.mixed (>= 0.2.4), cowplot (>= 1.0.0), devtools (>=
        2.0.1), ggplot2 (>= 3.1.0), ggpubr (>= 0.2.5), rmarkdown,
        seqinr (>= 3.4-5), survival (>= 2.43-3), testthat (>= 2.0.1),
        tidyr (>= 1.1.2)
RoxygenNote: 7.1.1
VignetteBuilder: knitr
Collate: 'asserts.R' 'class.R' 'data.R' 'global.R' 'midasHLA.R'
        'parsingFunctions.R' 'stats.R' 'summarise.R'
        'transformationFunctions.R' 'utils.R'
biocViews: CellBiology, Genetics, StatisticalMethod
Config/pak/sysreqs: cmake libfontconfig1-dev libfreetype6-dev
        libfribidi-dev make libharfbuzz-dev libicu-dev libpng-dev
        libxml2-dev libx11-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:06:38 UTC
RemoteUrl: https://github.com/bioc/midasHLA
RemoteRef: HEAD
RemoteSha: f95a6485cb1686a921b33069b2d6226274a8b76c
NeedsCompilation: no
Packaged: 2025-10-30 07:31:07 UTC; root
Author: Christian Hammer [aut],
  Maciej Migdał [aut, cre]
Maintainer: Maciej Migdał <mcjmigdal@gmail.com>
Built: R 4.6.0; ; 2025-10-30 07:33:27 UTC; windows
