MAnorm

MAnorm is a robust model for quantitative comparison of ChIP-Seq data sets.

Features

• Quantitatively compare ChIP-Seq samples
• Evaluate the overlap enrichment of protein binding sites compared to random
• Robust linear regression on common protein binding sites(peaks) for normalization
• The normalized M-value could serve as a quantitative measure of the differential binding
• Reflect authentic biological differences
• Support multiple format of sequencing reads

Contents

• Introduction
  • Model Description
• Tutorial
  • Installation
  • Usage of MAnorm
  • Input Format
  • MAnorm Output
• ChangeLog
  • v1.1.4 (2018-08-17)
  • v1.1.3 (2018-01-19)
  • v1.1.2 (2018-01-18)
  • v1.1.1 (2018-01-11)
  • v1.1 (2017-11-07)
• FAQ
• License
• Contact
  • GitHub Issue
  • Email

Citation

If you use MAnorm or any derived code, please cite this paper in your publication:

Shao Z, Zhang Y, Yuan GC, Orkin SH, Waxman DJ. (2012) MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol. Mar 16;13(3):R16.

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The Python version of MAnorm is developed by ShaoLab at CAS-MPG Partner Institute for Computational Biology, SIBS, CAS.

See also

GitHub repository of MAnorm: https://github.com/shao-lab/MAnorm