HIBAG
This is the development version of HIBAG; for the stable release version, see HIBAG.
All Bioconductor versions of HIBAG
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1
HLA Genotype Imputation with Attribute Bagging
Bioconductor version: 3.24 · Package version: 1.49.2
Imputes HLA classical alleles using GWAS SNP data, and it relies on a training set of HLA and SNP genotypes. HIBAG can be used by researchers with published parameter estimates instead of requiring access to large training sample datasets. It combines the concepts of attribute bagging, an ensemble classifier method, with haplotype inference for SNPs and HLA types. Attribute bagging is a technique which improves the accuracy and stability of classifier ensembles using bootstrap aggregating and random variable selection.
Author: Xiuwen Zheng [aut, cre, cph] 
, Bruce Weir [ctb, ths]
Maintainer: Xiuwen Zheng <zhengx at u.washington.edu>
Citation
From within R, enter citation("HIBAG"):
Xiuwen Zheng. HIBAG: HLA Genotype Imputation with Attribute Bagging. doi:10.18129/B9.bioc.HIBAG, R package version 1.49.2, https://bioconductor.org/packages/HIBAG.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("HIBAG")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.49.2 |
| License | GPL-3 |
| URL | https://github.com/zhengxwen/HIBAG https://hibag.s3.amazonaws.com/index.html |
| System Requirements | GNU make |
| Last updated | 2026-08-09 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11 years) |
| Downloads rank | 853 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Genetics, Software, StatisticalMethod |
| Package Short Url | https://bioconductor.org/packages/HIBAG/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HIBAG")| New Implementation of the HIBAG Algorithm with Latest Intel Intrinsics | HTML | R Script |
| HIBAG -- an R Package for HLA Genotype Imputation with Attribute Bagging | HTML | R Script |
| HIBAG -- an R Package for HLA Genotype Imputation with Attribute Bagging | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | HIBAG_1.49.2.tar.gz |
| Windows binary (x86_64) | HIBAG_1.49.2.zip |
| macOS binary (arm64) | HIBAG_1.49.2.tgz |
| macOS binary (x86_64) | HIBAG_1.49.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HIBAG |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HIBAG |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.2.0)
Imports: methods, RcppParallel
LinkingTo: RcppParallel (>= 5.0.0)
Suggests: parallel, ggplot2, reshape2, gdsfmt, SNPRelate, SeqArray (>= 1.20.0), knitr, markdown, rmarkdown, Rsamtools
Reverse dependencies
Suggests Me (1): PONG2