Sophisticated flavonoid pathway map based on large scale flavonoid profile datasets in Arabidopsis

<strong>How to duplicate the process in the article</strong> Dependent software - Cytoscape 3.2.1 (http://cytoscape.org) - R 3.2.0 (http://www.r-project.org) Dependent R package - ggplot2 <strong>Reproducing Figure 2.<br></strong> 1. Install and run Cytoscape 3.2.1 2. Open figure3.cys with <em>Open Session</em> toolbar button. <strong>Reproducing Figure 4.<br></strong> 1. Install R and ggplot2. 2. Run <em>fig4.R</em> with R. This script generates barplot png images for <em>fig4.csv</em>. 3. We manually created a network in <em>fig4.cys</em>. Then we renamed the barplot png images and mapped the images in <em>fig4.cys</em>. Although <em>fig4.cys</em> already has the custom graphics in the network, you can remap it with Cytoscape custom graphics manager.

<strong>如何复现本文中的实验流程</strong><br>依赖软件：Cytoscape 3.2.1（http://cytoscape.org）、R 3.2.0（http://www.r-project.org）<br>依赖R包：ggplot2<br><strong>复现图2</strong><br>1. 安装并启动Cytoscape 3.2.1<br>2. 通过<em>打开会话</em>工具栏按钮打开figure3.cys文件。<br><strong>复现图4</strong><br>1. 安装R与ggplot2<br>2. 使用R运行fig4.R脚本，该脚本可基于fig4.csv生成柱状图PNG图像<br>3. 我们在fig4.cys中手动构建了一张网络图，随后对生成的柱状图PNG图像进行重命名，并在fig4.cys中完成图像映射。尽管fig4.cys已在网络图中嵌入了自定义图形，您仍可通过Cytoscape自定义图形管理器重新完成图像映射。