The Cpipe ChIP-seq Analysis Pipeline

Cpipe is a comprehensive and user friendly ChIP-seq Analysis Pipeline written in Python.

See Simpest config for a quick view of how to use this pipeline.

Manual

• About the project
  • Purpose
  • Goal
• Features
  • Supported formats
  • Data preprocession
  • Correlation
  • Association Study
  • Motif
  • Quality control
• Data
  • Built-in Data
  • External Data
• Tools
  • Built-in Tools
  • External Tools
• Config file
  • Synopsis
  • Simpest config
  • Examples about replicates
• Output & Temporary files
  • Notation
  • Temporary files
  • Output result
  • Final PDF Report

API Documentation

Documentation for every chlin API.

• API Documentation
  • Controllers of QC

Others

• Index