Lilikoi: an R package for personalized pathway-based classification modeling using metabolomics data
Lilikoi: an R package for personalized pathway-based classification modeling using metabolomics data
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DOI：
10.1093/gigascience/giy136
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发表时间：
2018-12-10
期刊：
影响因子：
9.2
通讯作者：
Garmire, Lana X.
中科院分区：
文献类型：
--
作者：
Al-Akwaa, Fadhl M.;Yunits, Breck;Garmire, Lana X.
Lilikoi（夏威夷语中的百香果）是一个新的、全面的R包，用于使用代谢组学数据进行个性化的基于途径的分类建模。四个基本模块作为包的骨干：特征映射模块，标准化用户提供的代谢物名称并将其映射到路径；维度转换模块，使用路径放松评分将代谢组学特征转换为个性化的基于路径的特征；特征选择模块，帮助选择与疾病表型相关的重要通路特征；以及分类和预测模块，其中提供了各种机器学习分类算法。
Lilikoi (the Hawaiian word for passion fruit) is a new and comprehensive R package for personalized pathway-based classification modeling using metabolomics data. Four basic modules are presented as the backbone of the package: feature mapping module, which standardizes the metabolite names provided by users and maps them to pathways; dimension transformation module, which transforms the metabolomic profiles to personalized pathway-based profiles using pathway deregulation scores; feature selection module, which helps to select the significant pathway features related to the disease phenotypes; and classification and prediction module, which offers various machine learning classification algorithms.