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Bioconductor - midasHLA

midasHLA

This is the released version of midasHLA; for the devel version, see midasHLA.

R package for immunogenomics data handling and association analysis

Bioconductor version: Release (3.21)

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.

Author: Christian Hammer [aut], Maciej Migdał [aut, cre]

Maintainer: Maciej Migdał <mcjmigdal at gmail.com>

Citation (from within R, enter citation("midasHLA")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("midasHLA")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("midasHLA")
Details biocViews CellBiology, Genetics, Software, StatisticalMethod Version 1.16.0 In Bioconductor since BioC 3.13 (R-4.1) (4 years) License MIT + file LICENCE 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) System Requirements URL See More Package Archives

Follow Installation instructions to use this package in your R session.

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