DirichletMultinomial

DOI: 10.18129/B9.bioc.DirichletMultinomial    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see DirichletMultinomial.

Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data

Bioconductor version: 3.8

Dirichlet-multinomial mixture models can be used to describe variability in microbial metagenomic data. This package is an interface to code originally made available by Holmes, Harris, and Quince, 2012, PLoS ONE 7(2): 1-15, as discussed further in the man page for this package, ?DirichletMultinomial.

Author: Martin Morgan <martin.morgan at roswellpark.org>

Maintainer: Martin Morgan <martin.morgan at roswellpark.org>

Citation (from within R, enter citation("DirichletMultinomial")):

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("DirichletMultinomial")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("DirichletMultinomial")

 

PDF R Script An introduction to DirichletMultinomial
PDF   Reference Manual

Details

biocViews Classification, Clustering, ImmunoOncology, Metagenomics, Microbiome, Sequencing, Software
Version 1.24.1
In Bioconductor since BioC 2.11 (R-2.15) (6.5 years)
License LGPL-3
Depends S4Vectors, IRanges
Imports stats4, methods, BiocGenerics
LinkingTo
Suggests lattice, parallel, MASS, RColorBrewer, xtable
SystemRequirements gsl
Enhances
URL
Depends On Me
Imports Me TFBSTools
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package DirichletMultinomial_1.24.1.tar.gz
Windows Binary DirichletMultinomial_1.24.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) DirichletMultinomial_1.24.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/DirichletMultinomial
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DirichletMultinomial
Package Short Url http://bioconductor.org/packages/DirichletMultinomial/
Package Downloads Report Download Stats

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