rrbs

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair

Analysis pipelines for genomic sequencing data

A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)

Differential methylation: Easy, Fast, Identification and ANnoTation

DNA methylation analysis pipeline for reduced representation bissulfite sequencing data

Tracking the evolution of esophageal squamous cell carcinoma under dynamic immune selection by multi-omics sequencing

R package for DNA Methylation Analysis (and Gene Expression Integration) for Illumina Infinium Array and BS-Seq Data

Analyses combining ATAC-seq, RRBS, and RNA-seq data for purple urchins

The process of simulation and calculate some indexes

Methurator is a Python package designed to estimate CpGs saturation for DNA methylation sequencing data.

Pipeline for differential DNA methylation analysis

Bisulfite sequencing with pinned nf-core/methylseq on local Docker, Slurm, or AWS Batch, plus a layer that turns Bismark output into a beta table, QC, and plots. Shown on RRBS of colorectal tumor and normal (GSE95654). Nextflow, AWS CDK, Seqera Platform.

Code for the crb2a multi omics manuscript

One-liner solution for RRBS processing