R package for DNA methylation analysis
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Updated
Jan 22, 2024 - R
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
Bacterial Epigenomics Analysis SuiTe
A public repo to share methylation risk scores (MRS) derived from UCLA's electronic health records.
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
Weighted In Silico Pathology: a novel approach to assess intra-tumoral heterogeneity
A tool for discovering Differentially Methylated Regions
Gaussian mixture modelling - Unsupervised learning
Missing value imputation in methylation data R package
CimpleG, an R package to find (small) CpG signatures.
DISMISS is an R script, which as an additional step in MeDIP-Seq data analysis workflow, enables the allocation of strands to methylated DNA regions. It does this by analyzing the proportions of first mate reads aligning to the methylated locus from the plus and minus strands.
R package for the calculation of the following Within-Sample Heterogeneity Scores in Bisulfite Sequencing Data: FDRP, qFDRP, PDR, Epipolymorphism, Methylation Entropy and MHL
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