PieParty: visualizing cells from scRNA-seq data as pie charts.
PieParty: visualizing cells from scRNA-seq data as pie charts.
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DOI：
10.26508/lsa.202000986
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发表时间：
2021-05
影响因子：
4.4
通讯作者：
Harbour JW
中科院分区：
文献类型：
--
作者：
Kurtenbach S;Dollar JJ;Cruz AM;Durante MA;Decatur CL;Harbour JW
PieParty将scRNA-seq实验中的每个细胞可视化为饼图，其中饼图的每个切片对应于单个基因的表达。单细胞RNA测序（scRNA-seq）在许多研究领域已经成为一种变革性技术。降维技术如UMAP和tSNE用于以生物学上有意义的方式使待聚类的细胞的scRNA-seq数据在二维或三维中可视化。随后，基因表达经常被映射到这些图上，以显示基因表达在图中的分布，例如以区分细胞类型。然而，仅用单一颜色绘制每个单元格会导致重复和不直观的表示。在这里，我们提出了PieParty，它允许绘制scRNA-seq数据，使得每个细胞都表示为饼图，饼图中的每个切片对应于单个基因的基因表达。这允许同时可视化多个基因和基因网络的表达。由此产生的数字是信息密集，空间效率，高度直观。PieParty在GitHub上公开发布，网址为https://github.com/harbourlab/PieParty。
PieParty visualizes every cell in scRNA-seq experiments as pie charts, where every slice of a pie chart corresponds to the expression of a single gene. Single-cell RNA sequencing (scRNA-seq) has been a transformative technology in many research fields. Dimensional reduction techniques such as UMAP and tSNE are used to visualize scRNA-seq data in two or three dimensions for cells to be clustered in biologically meaningful ways. Subsequently, gene expression is frequently mapped onto these plots to show the distribution of gene expression across the plots, for instance to distinguish cell types. However, plotting each cell with only a single color leads to repetitive and unintuitive representations. Here, we present PieParty, which allows scRNA-seq data to be plotted such that every cell is represented as a pie chart, and every slice in the pie charts corresponds to the gene expression of a single gene. This allows for the simultaneous visualization of the expression of multiple genes and gene networks. The resulting figures are information dense, space efficient, and highly intuitive. PieParty is publicly available on GitHub at https://github.com/harbourlab/PieParty.