bismark

A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.

Pipeline for BS-Seq data based on snakemake

Produces coverage and methylation percentage data from FASTQ files.

Uses `snakemake` to run `bismark` in a reproducible pipeline. Can be run locally, or on a cluster running the SLURM scheduler.

Process SRA bisulfite sequencing data easily with Bismark-MethylDackel pipeline.

A basic simple workflow for bisulfite sequencing data methylation analysis using bismark.

DNA methylation analysis pipeline using Bismark and deepTools

Amplicon-seq data processing and analysis

End to End Pipeline for ctDNA methylation analysis: processes ELSA bisulfite sequencing data and builds region-level and fragment-level features for machine learning on Stage I lung cancer vs. controls.

Using Snakemake to implement ENCODE WGBS pipeline