DMN-class: Class '"DMN"'

In DirichletMultinomial: Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data

Description

Result from fitting a Dirichlet-Multinomial model.

Objects from the Class

Objects can be created by calls to dmn..

Slots

The contents of a slot is usually retrieved via the methods described on the mixture help page.

goodnessOfFit

NLE, LogDet, Laplace, AIC, and BIC criteria assessing goodness-of-fit.

group

matrix of dimension samples x k, providing the Dirichlet parameter vectors.

mixture

Weight

numeric() of length k, with relative weight of each component.

fit

Lower

matrix() of dimension taxa x k with 95% lower bounds on Dirichlet component vector estimates.

Estimate

matrix() of dimension taxa x k with Dirichlet component vector estimates.

Upper

matrix() of dimension taxa x k with 95% upper bounds on Dirichlet component vector estimates.

Methods

See the mixture help page.

Author(s)

Martin Morgan mailto:[e-mail]

See Also

dmn, mixture.

Examples

data(fit)
fit[[4]]

Example output

Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:parallel’:

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    anyDuplicated, append, as.data.frame, basename, cbind, colnames,
    dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
    grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
    order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
    rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which.max, which.min


Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges
class: DMN 
k: 4 
samples x taxa: 278 x 130 
Laplace: 38781.1 BIC: 40425.31 AIC: 39476.69 

DirichletMultinomial documentation built on Nov. 8, 2020, 7 p.m.