Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, USA.
Center for Public Health Genomics, University of Virginia, Charlottesville, Virginia, USA.
J Comput Biol. 2021 Jun;28(6):629-631. doi: 10.1089/cmb.2020.0426. Epub 2021 Apr 16.
Gene Set Enrichment Analysis (GSEA) is used to identify differentially expressed gene sets that are enriched for annotated biological functions. The existing GSEA R code is not in the form of a flexible package with analysis and plotting customization options, and the results produced are not generated in the form of R objects. In this study, we introduce the GSEAplot R package with novel functionality for saving relevant information from the analysis to the current R workspace, and we introduce the ability to customize plots and databases. The GSEAplot package provides a novel utility that facilitates the implementation of GSEA R-based in genomics analysis pipelines.
基因集富集分析（GSEA）用于识别差异表达的基因集，这些基因集富含注释的生物学功能。现有的 GSEA R 代码不是一种具有分析和绘图自定义选项的灵活包，并且生成的结果不是以 R 对象的形式生成的。在本研究中，我们引入了 GSEAplot R 包，该包具有从分析中保存相关信息到当前 R 工作区的新功能，并引入了自定义绘图和数据库的功能。GSEAplot 包提供了一种新的实用程序，可方便地在基于基因组学分析管道的 GSEA R 中实施。
