Program in Chemical and Physical Biology, Vanderbilt University School of Medicine, Nashville, TN, USA.
Epithelial Biology Center, Vanderbilt University Medical Center, Nashville, TN, USA.
STAR Protoc. 2021 Apr 17;2(2):100450. doi: 10.1016/j.xpro.2021.100450. eCollection 2021 Jun 18.
Single-cell RNA sequencing data require several processing procedures to arrive at interpretable results. While commercial platforms can serve as "one-stop shops" for data analysis, they relinquish the flexibility required for customized analyses and are often inflexible between experimental systems. For instance, there is no universal solution for the discrimination of informative or uninformative encapsulated cellular material; thus, pipeline flexibility takes priority. Here, we demonstrate a full data analysis pipeline, constructed modularly from open-source software, including tools that we have contributed. For complete details on the use and execution of this protocol, please refer to Petukhov et al. (2018), Heiser et al. (2020), and Heiser and Lau (2020).
单细胞 RNA 测序数据需要经过几个处理步骤才能得到可解释的结果。虽然商业平台可以作为数据分析的“一站式商店”，但它们放弃了定制分析所需的灵活性，并且在实验系统之间通常不灵活。例如，没有通用的解决方案来区分信息丰富或无信息的封装细胞物质；因此，管道灵活性优先。在这里，我们展示了一个完整的数据分析管道，它由开源软件构建而成，包括我们贡献的工具。有关使用和执行此协议的完整详细信息，请参见 Petukhov 等人（2018 年）、Heiser 等人（2020 年）和 Heiser 和 Lau（2020 年）。
