Ubuntu 18.04/20.04): libcairo2-dev, libnetcdf-dev, libxml2, libxt-dev and libssl-dev should be installed at frist įor Windows (e.g.
Ensure that you have necessary system environment configured.įor Linux (e.g. To use MetaboAnalystR 3.2, first install all package dependencies. Here we'd prefer to provide a comprehensive starting tutorial from installation of MetaboAnalystR 3.2 (Updated at 1). More case study have been provided in the vignette of this R package. To demonstrate this new functionality, we perform end-to-end metabolomics data analysis on the clinical IBD samples in this tutorial. In addition, more support for functional interpretation directly from m/z peaks via mummichog2 (PMID: 23861661), and a new pathway-based method to integrate multiomics data has been added. The version 3 aims to improve the current global metabolomics workflow by implementing a fast parameter optimization algorithm for peak picking, and automated identification of the most suitable method for batch effect correction from 12 well-established approaches. After installing and loading the package, users will be able to reproduce the same results from their local computers using the corresponding R command history downloaded from MetaboAnalyst web site, thereby achieving maximum flexibility and reproducibility. The package is synchronized with the MetaboAnalyst web server. MetaboAnalystR 3 contains the R functions and libraries underlying the popular MetaboAnalyst web server, including metabolomic data analysis, visualization, and functional interpretation.
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