Registration Open for Bioc2024 July 24-26


Repetitive Element Methylation Prediction

Bioconductor version: Release (3.19)

Machine learning-based tools to predict DNA methylation of locus-specific repetitive elements (RE) by learning surrounding genetic and epigenetic information. These tools provide genomewide and single-base resolution of DNA methylation prediction on RE that are difficult to measure using array-based or sequencing-based platforms, which enables epigenome-wide association study (EWAS) and differentially methylated region (DMR) analysis on RE.

Author: Yinan Zheng [aut, cre], Lei Liu [aut], Wei Zhang [aut], Warren Kibbe [aut], Lifang Hou [aut, cph]

Maintainer: Yinan Zheng <y-zheng at>

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


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:

An Introduction to the REMP Package PDF R Script
Reference Manual PDF


biocViews DNAMethylation, DataImport, DifferentialMethylation, Epigenetics, GenomeWideAssociation, MethylationArray, Microarray, MultiChannel, Preprocessing, QualityControl, Sequencing, Software, TwoChannel
Version 1.28.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License GPL-3
Depends R (>= 3.6), SummarizedExperiment(>= 1.1.6), minfi(>= 1.22.0)
Imports readr, rtracklayer, graphics, stats, utils, methods, settings, BiocGenerics, S4Vectors, Biostrings, GenomicRanges, IRanges, GenomeInfoDb, BiocParallel, doParallel, parallel, foreach, caret, kernlab, ranger, BSgenome, AnnotationHub,, impute, iterators
System Requirements
Bug Reports
See More
Suggests IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg38, knitr, rmarkdown, minfiDataEPIC
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 REMP_1.28.0.tar.gz
Windows Binary
macOS Binary (x86_64) REMP_1.28.0.tgz
macOS Binary (arm64) REMP_1.28.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats