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

ABSTRACT: 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.

SUBMITTER: Yu W

PROVIDER: S-EPMC7169039 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature

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scATAC-pro: a comprehensive workbench for single-cell chromatin accessibility sequencing data.

Yu Wenbao W Uzun Yasin Y Zhu Qin Q Chen Changya C Tan Kai K

Genome biology 20200420 1

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 m ...[more]

PMID: 32312293

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