DMNGroup-class: Class '"DMNGroup"'
In DirichletMultinomial: Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data

Description Objects from the Class Slots Extends Methods Author(s) See Also Examples

Result from fitting a Dirichlet-Multinomial generative classifier.

Objects can be created by calls to dmngroup.

All slots in this class are inheritted from SimpleList; see ‘Methods’, below, for information on how to manipulate this object.

Class "SimpleList", directly. Class "List", by class "SimpleList", distance 2. Class "Vector", by class "SimpleList", distance 3. Class "Annotated", by class "SimpleList", distance 4.

See the mixture help page for functions that operate on DMNGroup and DMN.

DMNGroup can be manipulated as a list; see SimpleList for a description of typical list-like functions.

Martin Morgan mailto:mtmorgan@fhcrc.org

mixture, DMN, SimpleList.

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data(bestgrp)
bestgrp
bestgrp[[1]]

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: DMNGroup 
summary:
      k samples taxa       NLE   LogDet   Laplace       BIC       AIC
Lean  1      61  130  9065.657 162.3513  9027.371  9332.864  9195.657
Obese 3     193  130 26769.931 407.4130 26613.414 27801.418 27161.931
class: DMN 
k: 1 
samples x taxa: 61 x 130 
Laplace: 9027.371 BIC: 9332.864 AIC: 9195.657