Metabolomics Personalized Pathway Analysis Tool R package lilikoi version 2.1.1 CRAN Task View: MissingData (https://CRAN.R-project.org/view=MissingData) CRAN Task View: Omics (https://CRAN.R-project.org/view=Omics) A comprehensive analysis tool for metabolomics data. It consists a variety of functional modules, including several new modules: a pre-processing module for normalization and imputation, an exploratory data analysis module for dimension reduction and source of variation analysis, a classification module with the new deep-learning method and other machine-learning methods, a prognosis module with cox-PH and neural-network based Cox-nnet methods, and pathway analysis module to visualize the pathway and interpret metabolite-pathway relationships. References: H. Paul Benton <http://www.metabolomics-forum.com/index.php?topic=281.0> Jeff Xia <https://github.com/cangfengzhe/Metabo/blob/master/MetaboAnalyst/website/name_match.R> Travers Ching, Xun Zhu, Lana X. Garmire (2018) <doi:10.1371/journal.pcbi.1006076>. Software Depends: R (>= 3.5.0) Imports: car, caret, dplyr, gbm, ggplot2, glmnet, h2o, impute, infotheo, limma, M3C, Metrics, MLmetrics, parallel, princurve, pathview, plyr, preprocessCore, pROC, RCy3, reticulate, reshape, RWeka, scales, stats, stringr, survminer, survival Suggests: knitr, rmarkdown Lana Garmire <lana.garmire.group@gmail.com> Comprehensive R Archive Network (CRAN) Xinying Fang [aut], Yu Liu [aut], Zhijie Ren [aut], Fadhl Alakwaa [aut], Sijia Huang [aut], Lana Garmire [aut, cre] GPL-2 2022-10-05 application/tgz https://CRAN.R-project.org/package=lilikoi doi:10.32614/CRAN.package.lilikoi