Registration Open for Bioc2024 July 24-26


Detection of cell-type-specific risk-CpG sites in epigenome-wide association studies

Bioconductor version: Release (3.19)

In epigenome-wide association studies, the measured signals for each sample are a mixture of methylation profiles from different cell types. The current approaches to the association detection only claim whether a cytosine-phosphate-guanine (CpG) site is associated with the phenotype or not, but they cannot determine the cell type in which the risk-CpG site is affected by the phenotype. We propose a solid statistical method, HIgh REsolution (HIRE), which not only substantially improves the power of association detection at the aggregated level as compared to the existing methods but also enables the detection of risk-CpG sites for individual cell types. The "HIREewas" R package is to implement HIRE model in R.

Author: Xiangyu Luo <xyluo1991 at>, Can Yang <macyang at>, Yingying Wei <yweicuhk at>

Maintainer: Xiangyu Luo <xyluo1991 at>

Citation (from within R, enter citation("HIREewas")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


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


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

HIREewas PDF R Script
Reference Manual PDF


biocViews DNAMethylation, DifferentialMethylation, FeatureExtraction, Software
Version 1.22.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License GPL (>= 2)
Depends R (>= 3.5.0)
Imports quadprog, gplots, grDevices, stats
System Requirements
See More
Suggests BiocStyle, knitr, BiocGenerics
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package HIREewas_1.22.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) HIREewas_1.22.0.tgz
macOS Binary (arm64) HIREewas_1.22.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats