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首页> 外文期刊>Source Code for Biology Medicine >HeatmapGenerator: high performance RNAseq and microarray visualization software suite to examine differential gene expression levels using an R and C++ hybrid computational pipeline
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HeatmapGenerator: high performance RNAseq and microarray visualization software suite to examine differential gene expression levels using an R and C++ hybrid computational pipeline

机译：HeatmapGenerator：高性能RNAseq和微阵列可视化软件套件，可使用R和C ++混合计算流水线检查差异基因表达水平

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Background The graphical visualization of gene expression data using heatmaps has become an integral component of modern-day medical research. Heatmaps are used extensively to plot quantitative differences in gene expression levels, such as those measured with RNAseq and microarray experiments, to provide qualitative large-scale views of the transcriptonomic landscape. Creating high-quality heatmaps is a computationally intensive task, often requiring considerable programming experience, particularly for customizing features to a specific dataset at hand. Methods Software to create publication-quality heatmaps is developed with the R programming language, C++ programming language, and OpenGL application programming interface (API) to create industry-grade high performance graphics. Results We create a graphical user interface (GUI) software package called HeatmapGenerator for Windows OS and Mac OS X as an intuitive, user-friendly alternative to researchers with minimal prior coding experience to allow them to create publication-quality heatmaps using R graphics without sacrificing their desired level of customization. The simplicity of HeatmapGenerator is that it only requires the user to upload a preformatted input file and download the publicly available R software language, among a few other operating system-specific requirements. Advanced features such as color, text labels, scaling, legend construction, and even database storage can be easily customized with no prior programming knowledge. Conclusion We provide an intuitive and user-friendly software package, HeatmapGenerator, to create high-quality, customizable heatmaps generated using the high-resolution color graphics capabilities of R. The software is available for Microsoft Windows and Apple Mac OS X. HeatmapGenerator is released under the GNU General Public License and publicly available at: http://sourceforge.net/projects/heatmapgenerator/ webcite. The Mac OS X direct download is available at: http://sourceforge.net/projects/heatmapgenerator/files/HeatmapGenerator_MAC_OSX.tar.gz/download webcite. The Windows OS direct download is available at: http://sourceforge.net/projects/heatmapgenerator/files/HeatmapGenerator_WINDOWS.zip/download webcite.
机译：背景技术使用热图的基因表达数据的图形化可视化已成为现代医学研究的重要组成部分。热图被广泛用于绘制基因表达水平的定量差异，例如使用RNAseq和微阵列实验测量的差异，以提供转录组学景观的定性大规模视图。创建高质量的热图是一项计算量大的任务，通常需要相当多的编程经验，尤其是要针对手头的特定数据集定制功能时。方法使用R编程语言，C ++编程语言和OpenGL应用程序编程接口（API）开发用于创建发布质量的热图的软件，以创建行业级的高性能图形。结果我们为Windows OS和Mac OS X创建了一个名为HeatmapGenerator的图形用户界面（GUI）软件包，它是研究人员的直观，用户友好的替代方案，具有最少的先前编码经验，使他们可以在不牺牲R的情况下使用R图形创建具有出版质量的热图。他们期望的定制水平。 HeatmapGenerator的简单之处在于，它仅要求用户上载预格式化的输入文件并下载公共可用的R软件语言，以及其他一些特定于操作系统的要求。无需事先编程知识即可轻松自定义高级功能，例如颜色，文本标签，缩放，图例构造，甚至数据库存储。结束语我们提供了一个直观且用户友好的软件包HeatmapGenerator，用于创建使用R的高分辨率彩色图形功能生成的高质量，可自定义的热图。该软件可用于Microsoft Windows和Apple Mac OSX。HeatmapGenerator已发布。根据GNU通用公共许可协议，可在以下网址公开获得：http://sourceforge.net/projects/heatmapgenerator/ webcite。 Mac OS X的直接下载位于：http://sourceforge.net/projects/heatmapgenerator/files/HeatmapGenerator_MAC_OSX.tar.gz/download webcite。 Windows OS直接下载位于：http://sourceforge.net/projects/heatmapgenerator/files/HeatmapGenerator_WINDOWS.zip/download webcite。

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