scHi-C Evaluation - Data Quality Assessment for All Known Single Cell Chromatin Interaction Datasets (As of Sept. 1, 2024)

This is a repository for the scripts used to analyze and visualize the data quality of all scHi-C datasets generated by various protocols.

If you use this work, please reference the corresponding paper: Dautle M., Chen Y. Single-Cell Hi-C Technologies and Computational Data Analysis. (Under Review)

Requirements

• Linux OS (for MakeCoolerFiles.sh)
• Python

Required Python Packages:

• numpy
• matplotlib
• seaborn
• pandas
• cooler
• random
• glob
• os

Overview of Major Steps in the scHiC Workflow

Figure 1. Overview of major steps in scHi-C (A) experiments, (B) data preprocessing, and (C) computational analysis.