README.md

In REMP: Repetitive Element Methylation Prediction

REMP: Repetitive Element Methylation Prediction

REMP provides 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 directly using array-based or sequencing-based platforms, which enables epigenome-wide association study (EWAS) and differentially methylated region (DMR) analysis on RE.

Supporting methylation platforms: + Illumina 450k BeadChip Array + Illumina EPIC BeadChip Array + Illumina methylation sequencing platforms (e.g., TruSeq Methyl Capture EPIC)

Installation

REMP is available in Bioconductor repository

## try http:// if https:// URLs are not supported
if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")

## To get the latest version of REMP, please make sure you are using the latest Bioconductor

## Install REMP
BiocManager::install("REMP")

Citation:

Zheng Y, Joyce BT, Liu L, Zhang Z, Kibbe WA, Zhang W, Hou L. Prediction of genome-wide DNA methylation in repetitive elements. Nucleic Acids Research. 2017;45(15):8697-711. PubMed PMID: 28911103; PMCID: PMC5587781. http://dx.doi.org/10.1093/nar/gkx587.

Contact package maintainer:

Yinan Zheng

Email: [e-mail]

REMP documentation built on Nov. 8, 2020, 8:05 p.m.