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gghic

gghic is a powerful and flexible R package for visualizing 3D genome organization from Hi-C and multi-way contact data. Built on ggplot2, it provides publication-ready visualizations with minimal code while maintaining full customization capabilities.

Features

  • 🎨 Intuitive API - Simple high-level functions with sensible defaults
  • 🧬 Comprehensive - Visualize Hi-C heatmaps, TADs, loops, genes, and signal tracks
  • 🚀 Memory Efficient - Focused data loading for large datasets
  • 📊 Publication Ready - Generate high-quality figures with minimal effort
  • 🔧 Customizable - Full ggplot2 compatibility for advanced styling
  • 🧪 Multi-way Contacts - Native support for Pore-C and other multi-contact data

Installation

From GitHub

Install the development version using devtools:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")
if (!require("devtools", quietly = TRUE)) install.packages("devtools")

# Install gghic
devtools::install_github("jasonwong-lab/gghic")

Documentation

Getting Help