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Graphia：一个基于图形的高维数据可视化和分析平台。

Graphia: A platform for the graph-based visualisation and analysis of high dimensional data.

机构信息

The Roslin Institute, Easter Bush Campus, The University of Edinburgh, Edinburgh, United Kingdom.

Kajeka Limited, Roslin Innovation Centre, Easter Bush Campus, The University of Edinburgh, Edinburgh, United Kingdom.

出版信息

PLoS Comput Biol. 2022 Jul 25;18(7):e1010310. doi: 10.1371/journal.pcbi.1010310. eCollection 2022 Jul.

DOI:10.1371/journal.pcbi.1010310
PMID:35877685
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9352203/
Abstract

Graphia is an open-source platform created for the graph-based analysis of the huge amounts of quantitative and qualitative data currently being generated from the study of genomes, genes, proteins metabolites and cells. Core to Graphia's functionality is support for the calculation of correlation matrices from any tabular matrix of continuous or discrete values, whereupon the software is designed to rapidly visualise the often very large graphs that result in 2D or 3D space. Following graph construction, an extensive range of measurement algorithms, routines for graph transformation, and options for the visualisation of node and edge attributes are available, for graph exploration and analysis. Combined, these provide a powerful solution for the interpretation of high-dimensional data from many sources, or data already in the form of a network or equivalent adjacency matrix. Several use cases of Graphia are described, to showcase its wide range of applications in the analysis biological data. Graphia runs on all major desktop operating systems, is extensible through the deployment of plugins and is freely available to download from https://graphia.app/.

摘要

Graphia 是一个开源平台，专为基于图形的分析而创建，用于分析当前从基因组、基因、蛋白质、代谢物和细胞研究中产生的大量定量和定性数据。Graphia 的核心功能是支持从任何连续或离散值的表格矩阵计算相关矩阵，然后软件设计用于快速可视化通常非常大的图形，这些图形以 2D 或 3D 空间表示。在构建图形之后，可提供广泛的测量算法、图形变换例程以及节点和边属性可视化选项，用于图形探索和分析。这些功能结合在一起，为解释来自多个来源的高维数据或已经以网络或等效邻接矩阵形式存在的数据提供了强大的解决方案。描述了 Graphia 的几个用例，以展示其在分析生物数据方面的广泛应用。Graphia 可在所有主要桌面操作系统上运行，可通过插件扩展，可从 https://graphia.app/ 免费下载。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/dd0406f5ad9e/pcbi.1010310.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/93c24e028708/pcbi.1010310.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/9f2359c9d3a1/pcbi.1010310.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/4e010a75a4d4/pcbi.1010310.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/e03c31248c37/pcbi.1010310.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/3438615a9db1/pcbi.1010310.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/dd0406f5ad9e/pcbi.1010310.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/93c24e028708/pcbi.1010310.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/9f2359c9d3a1/pcbi.1010310.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/4e010a75a4d4/pcbi.1010310.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/e03c31248c37/pcbi.1010310.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/3438615a9db1/pcbi.1010310.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/115f/9352203/dd0406f5ad9e/pcbi.1010310.g006.jpg

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