R package for DNA methylation analysis

R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing

Enhancer Linking by Methylation/Expression Relationship (ELMER) is package to identify tumor-specific changes in DNA methylation within distal enhancers, and link these enhancers to downstream target genes

Bayesian Clustering and Imputation of Single Cell Methylomes

Bioinformatics Pipeline

A Bioconductor package and shiny app for DNA methylation data length bias adjustment in gene set testing

A public repo to share methylation risk scores (MRS) derived from UCLA's electronic health records.

Bacterial Epigenomics Analysis SuiTe

EpiMethEx (Epigenetic Methylation and Expression), a R package to perform a large-scale integrated analysis by cyclic correlation analyses between methylation and gene expression data.

SCREW: A Reproducible Workflow for Single-Cell Epigenomics

💹 The package is user friendly interface based on the cgdsr and other modeling packages to explore, compare, and analyse all available Cancer Data (Clinical data, Gene Mutation, Gene Methylation, Gene Expression, Protein Phosphorylation, Copy Number Alteration) hosted by the Computational Biology Center at Memorial-Sloan-Kettering Cancer Center …

A Snakemake pipeline for RRBS data analysis

CimpleG, an R package to find (small) CpG signatures.

Missing value imputation in methylation data R package

This package provides Illumina Mouse Methylation Array Manifest (12.v1, Genome Build mm10) compatible with minfi.

Weighted In Silico Pathology: a novel approach to assess intra-tumoral heterogeneity

A tool for discovering Differentially Methylated Regions

Correction of batch effects in DNA methylation data

Methylation Array Cross-Reactive Probes

Gaussian mixture modelling - Unsupervised learning