BHC

DOI: 10.18129/B9.bioc.BHC    

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

Bayesian Hierarchical Clustering

Bioconductor version: 3.8

The method performs bottom-up hierarchical clustering, using a Dirichlet Process (infinite mixture) to model uncertainty in the data and Bayesian model selection to decide at each step which clusters to merge. This avoids several limitations of traditional methods, for example how many clusters there should be and how to choose a principled distance metric. This implementation accepts multinomial (i.e. discrete, with 2+ categories) or time-series data. This version also includes a randomised algorithm which is more efficient for larger data sets.

Author: Rich Savage, Emma Cooke, Robert Darkins, Yang Xu

Maintainer: Rich Savage <r.s.savage at warwick.ac.uk>

Installation

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

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

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("BHC")

 

PDF	R Script	Bayesian Hierarchical Clustering
PDF		Reference Manual

Details

biocViews	Clustering, Microarray, Software
Version	1.34.0
In Bioconductor since	BioC 2.7 (R-2.12) (8.5 years)
License	GPL-3
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Package Archives

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

Source Package	BHC_1.34.0.tar.gz
Windows Binary	BHC_1.34.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	BHC_1.34.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BHC
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BHC
Package Short Url	http://bioconductor.org/packages/BHC/
Package Downloads Report	Download Stats