BHC

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see BHC.

Bayesian Hierarchical Clustering

Bioconductor version: Release (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("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")

Bayesian Hierarchical Clustering	PDF	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Clustering, Microarray, Software
Version	1.56.0
In Bioconductor since	BioC 2.7 (R-2.12) (14 years)
License	GPL-3
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Imports
System Requirements
URL

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Build Report	Build Report

Package Archives

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

Source Package	BHC_1.56.0.tar.gz
Windows Binary (x86_64)	BHC_1.56.0.zip (64-bit only)
macOS Binary (x86_64)
macOS Binary (arm64)
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	https://bioconductor.org/packages/BHC/
Package Downloads Report	Download Stats