dmn {DirichletMultinomial} | R Documentation |
Fit Dirichlet-Multinomial models to a sample x taxon count matrix.
dmn(count, k, verbose = FALSE, seed = runif(1, 0, .Machine$integer.max))
count |
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k |
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verbose |
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seed |
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This implements Dirichlet-multinomial mixture models describe in the package help page, DirichletMultinomial-package.
An object of class dmn
, with elements (elements are usually
retrieved via functions defined in the package, not directly).
GoodnessOfFit |
NLE, LogDet, Laplace, AIC, and BIC criteria assessing goodness-of-fit. |
Group |
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Mixture |
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Fit |
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Martin Morgan mailto:mtmorgan@fhcrc.org
Holmes I, Harris K, Quince C, 2012 Dirichlet Multinomial Mixtures: Generative Models for Microbial Metagenomics. PLoS ONE 7(2): e30126. doi:10.1371/journal.pone.0030126.
DirichletMultinomial-package,
vignette("DirichletMultinomial")
data(fit) ## k = 1:7; full example in vignette lplc <- sapply(fit, laplace) plot(lplc, type="b") fit[[which.min(lplc)]]