ScATAC-pro: A comprehensive workbench for single-cell chromatin accessibility sequencing data

Wenbao Yu, Yasin Uzun, Qin Zhu, Changya Chen, Kai Tan

Research output: Contribution to journalArticlepeer-review

19 Scopus citations


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

Original languageEnglish (US)
Article number94
JournalGenome biology
Issue number1
StatePublished - Apr 20 2020

All Science Journal Classification (ASJC) codes

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology


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