lnmCluster (Q101519)
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Perform Logistic Normal Multinomial Clustering for Microbiome Compositional Data
| Language | Label | Description | Also known as |
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| default for all languages | No label defined |
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| English | lnmCluster |
Perform Logistic Normal Multinomial Clustering for Microbiome Compositional Data |
Statements
expanded from: GPL (≥ 2) (English)
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Sanjeena Dang
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Yuan Fang
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Sanjeena Subedi
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28 August 2026
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An implementation of logistic normal multinomial (LNM) clustering. It is an extension of LNM mixture model proposed by Fang and Subedi (2020) <doi:10.1038/s41598-023-41318-8>, and is designed for clustering compositional data. The package includes 3 extended models: LNM Factor Analyzer (LNM-FA), LNM Bicluster Mixture Model (LNM-BMM) and Penalized LNM Factor Analyzer (LNM-FA). There are several advantages of LNM models: 1. LNM provides more flexible covariance structure; 2. Factor analyzer can reduce the number of parameters to estimate; 3. Bicluster can simultaneously cluster subjects and taxa, and provides significant biological insights; 4. Penalty term allows sparse estimation in the covariance matrix. Details for model assumptions and interpretation can be found in papers: Tu and Subedi (2023) <doi:10.1007/s00357-023-09452-0> and Tu and Subedi (2022) <doi:10.3329/jsr.v56i2.67469>. It also include a Biclustering algorithm that applies to multivariate normal data: Tu and Subedi (2022) <doi:10.1002/sam.11555>.
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