lilikoi: Metabolomics Personalized Pathway Analysis Tool

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>.

Package details

AuthorXinying Fang [aut], Yu Liu [aut], Zhijie Ren [aut], Fadhl Alakwaa [aut], Sijia Huang [aut], Lana Garmire [aut, cre]
MaintainerLana Garmire <lana.garmire.group@gmail.com>
LicenseGPL-2
Version2.1.1
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:
install.packages("lilikoi")

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lilikoi documentation built on Oct. 6, 2022, 1:05 a.m.