Rcirc: An R Package for circRNA Analyses and Visualization
Rcirc: An R Package for circRNA Analyses and Visualization
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Rcirc：用于 circRNA 分析和可视化的 R 软件包
DOI：
10.3389/fgene.2020.00548
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发表时间：
2020
影响因子：
3.7
通讯作者：
Guanglin Li
中科院分区：
文献类型：
--
作者：
Peisen Sun;Haoming Wang;Guanglin Li
环状RNA（circRNA）是一种特殊的内源性RNA，具有闭环结构，在许多生物过程中发挥着重要作用。随着新一代测序技术和生物信息学方法的完善，一些基于RNA-seq的circRNA检测工具已经发布。然而，只有少数工具专注于下游分析，且可视化能力较差。在这里，我们开发了 R 包“Rcirc”，用于在检测后对 circRNA 进行进一步分析。 Rcirc 识别 circRNA 的编码能力并可视化该功能的各个方面。它还提供单个 circRNA 和数千个 circRNA 元特征的通用可视化。 Rcirc 被设计为一个用户友好的工具，涵盖许多高度自动化的功能，而无需用户运行许多复杂的过程。它可以在 GitHub (https://github.com/PSSUN/Rcirc) 上使用，许可协议为 GPL 3.0。
Circular RNA (circRNA), which has a closed-loop structure, is a kind of special endogenous RNA and plays important roles in many biological processes. With the improvement of next-generation sequencing technology and bioinformatics methods, some tools have been published for circRNA detection based on RNA-seq. However, only a few tools focus on downstream analyses, and they have poor visualization ability. Here, we developed the R package ‘Rcirc’ for further analyses of circRNA after its detection. Rcirc identifies the coding ability of circRNA and visualize various aspects of this feature. It also provides general visualization for both single circRNAs and meta-features of thousands of circRNAs. Rcirc was designed as a user-friendly tool that covers many highly automatic functions without running many complicated processes by users. It is available on GitHub (https://github.com/PSSUN/Rcirc) under the license GPL 3.0.