Center for Childhood Cancer Research, The Children's Hospital of Philadelphia, Philadelphia, PA, 19104, USA.
Department of Biomedical and Health Informatics, The Children's Hospital of Philadelphia, Philadelphia, PA, 19104, USA.
Genome Biol. 2020 Apr 20;21(1):94. doi: 10.1186/s13059-020-02008-0.
Single-cell chromatin accessibility sequencing has become a powerful technology for understanding epigenetic heterogeneity of complex tissues. However, there is a lack of open-source software for comprehensive processing, analysis, and visualization of such data generated using all existing experimental protocols. Here, we present scATAC-pro for quality assessment, analysis, and visualization of single-cell chromatin accessibility sequencing data. scATAC-pro computes a range of quality control metrics for several key steps of experimental protocols, with a flexible choice of methods. It generates summary reports for both quality assessment and downstream analysis. scATAC-pro is available at https://github.com/tanlabcode/scATAC-pro.
单细胞染色质可及性测序技术已经成为研究复杂组织中表观遗传异质性的强大工具。然而，目前缺乏用于全面处理、分析和可视化使用所有现有实验方案生成的此类数据的开源软件。在这里，我们提出了 scATAC-pro，用于单细胞染色质可及性测序数据的质量评估、分析和可视化。scATAC-pro 为实验方案的几个关键步骤计算了一系列质量控制指标，并提供了灵活的方法选择。它为质量评估和下游分析生成总结报告。scATAC-pro 可在 https://github.com/tanlabcode/scATAC-pro 上获得。
