diffloop {diffloop} | R Documentation

## diffloop: A package for differential DNA loop calling from ChIA-PET data

### Description

The diffloop package contains a suite of tools and S4 data objects to efficiently facilitate the analysis of ChIA-PET datasets. Key features include differential loop calling, visualization of looping in regions, quality-control metrics, and principal component analysis across experiments.

### diffloop classes

Three classes mostly comprise the methodology in `diffloop`. First, `loops` is a basic structure that contains one or more ChIA-PET experiments, `loopfit` links an `edgeR` fit to a `loops` and currently has little functionality except for generating another `loops` object where per-loop summary statistics are added.

[Package diffloop version 1.12.0 Index]