Logistic Normal Multinomial Factor Analyzers for Clustering Microbiome Data

DOI10.48550/ARXIV.2101.01871MaRDI QIDQ101518zbMATH OpenOpenAlexFDO

Authors Wangshu Tu, Sanjeena Subedi, Wangshu Tu, Sanjeena Subedi

Publication date 6 January 2021

Published in Journal of Classification (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/2101.01871

zbMATH Keywords

cluster analysishigh-dimensional datamodel-based clusteringmixture modellogistic normal multinomial modelmicrobiome data

Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30)

Abstract: The human microbiome plays an important role in human health and disease status. Next generating sequencing technologies allow for quantifying the composition of the human microbiome. Clustering these microbiome data can provide valuable information by identifying underlying patterns across samples. Recently, Fang and Subedi (2020) proposed a logistic normal multinomial mixture model (LNM-MM) for clustering microbiome data. As microbiome data tends to be high dimensional, here, we develop a family of logistic normal multinomial factor analyzers (LNM-FA) by incorporating a factor analyzer structure in the LNM-MM. This family of models is more suitable for high-dimensional data as the number of parameters in LNM-FA can be greatly reduced by assuming that the number of latent factors is small. Parameter estimation is done using a computationally efficient variant of the alternating expectation conditional maximization algorithm that utilizes variational Gaussian approximations. The proposed method is illustrated using simulated and real datasets.

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Cited in

(2)

• A mixture of logistics skew-normal multinomial models
• lnmCluster

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