midasHLA

DOI:10.18129/B9.bioc.midasHLA

R package for immunogenomics data handling and association analysis

Bioconductor version: Release (3.16)

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

Installation

To install this package, start R (version "4.2") and enter:

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

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

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("midasHLA")

HTML	R Script	MiDAS quick start
HTML	R Script	MiDAS tutorial
PDF		Reference Manual
Text		NEWS

Details

biocViews	CellBiology,Genetics,Software,StatisticalMethod
Version	1.6.0
In Bioconductor since	BioC 3.13 (R-4.1) (1.5 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)
LinkingTo
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)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	midasHLA_1.6.0.tar.gz
Windows Binary	midasHLA_1.6.0.zip(64-bit only)
macOS Binary (x86_64)	midasHLA_1.6.0.tgz
macOS Binary (arm64)	midasHLA_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/midasHLA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/midasHLA
Bioc Package Browser	https://code.bioconductor.org/browse/midasHLA/
Package Short Url	//www.andersvercelli.com/packages/midasHLA/
Package Downloads Report	Download Stats