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CluBCpG is a software package built to analyze whole genome bisulfite sequencing (WGBS) data

Project description

CluBCpG: Cluster-Based analysis of CpG methylation

Build Status Documentation Status Language grade: Python

What is CluBCpG?

CluBCpG is a software package built to analyze whole genome bisulfite sequencing (WGBS) data. This toolkit will divide each chromosome into small user-defined intervals, extract all WGBS reads within those intervals, cluster them based on identity, and write a final report to the use containing all identified CpG methylation patterns.

How do I use this?

Full documentation is available on ReadTheDocs

Requirements

  • Python >= 3.5
  • Installation of Samtools on your PATH

Install

  • (Optional, but HIGHLY recommended) Create a new python virtual environment and activate that virualenv
  • Execute pip install clubcpg to install the package. Requirements will automatically be installed if not already present.

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