Department of Electronic Engineering, Rovira i Virgili University, IISPV, Tarragona 43007, Spain.
Spanish Biomedical Research Centre in Diabetes and Associated Metabolic Disorders (CIBERDEM), Madrid 28029, Spain.
Bioinformatics. 2017 Aug 1;33(15):2427-2428. doi: 10.1093/bioinformatics/btx182.
R platform provides some packages that are useful to process mass spectrometry imaging (MSI) data; however, none of them provide an easy to use graphical user interface (GUI). Here, we introduce rMSI, an R package for MSI data analysis focused on providing an efficient way to manage MSI data together with a GUI integrated in R environment. MS data is loaded in rMSI custom format optimized to minimize the memory footprint yet maintaining a fast spectra access. The rMSI GUI is designed for simple and effective data exploration and visualization. Moreover, rMSI is designed to be integrated in the R environment through a library of functions that can be used to share MS data across others R packages. The release of rMSI for R environment establishes a novel and flexible platform for MSI data analysis, completely free and open-source.
The code, the documentation, a tutorial and example data are available open-source at: github.com/prafols/rMSI.
Supplementary data are available at Bioinformatics online.
R 平台提供了一些有用的包，可用于处理质谱成像 (MSI) 数据；然而，它们都没有提供一个易于使用的图形用户界面 (GUI)。在这里，我们介绍了 rMSI，这是一个用于 MSI 数据分析的 R 包，专注于提供一种有效的方法来管理 MSI 数据，并在 R 环境中集成一个 GUI。MSI 数据以 rMSI 自定义格式加载，该格式经过优化，可最大限度地减少内存占用，同时保持快速的光谱访问。rMSI GUI 旨在进行简单有效的数据探索和可视化。此外，rMSI 通过一个库中的函数进行设计，这些函数可用于在其他 R 包之间共享 MS 数据，从而集成到 R 环境中。rMSI 为 R 环境的发布为 MSI 数据分析建立了一个新颖且灵活的平台，完全免费且开源。
代码、文档、教程和示例数据可在 github.com/prafols/rMSI 上获得开源。
补充数据可在生物信息学在线获得。
