banocc

DOI: 10.18129/B9.bioc.banocc    

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

Bayesian ANalysis Of Compositional Covariance

Bioconductor version: 3.8

BAnOCC is a package designed for compositional data, where each sample sums to one. It infers the approximate covariance of the unconstrained data using a Bayesian model coded with `rstan`. It provides as output the `stanfit` object as well as posterior median and credible interval estimates for each correlation element.

Author: Emma Schwager [aut, cre], Curtis Huttenhower [aut]

Maintainer: George Weingart <george.weingart at gmail.com>, Curtis Huttenhower <chuttenh at hsph.harvard.edu>

Installation

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

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

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("banocc")

 

HTML	R Script	BAnOCC (Bayesian Analysis of Compositional Covariance)
PDF		Reference Manual
Text		LICENSE

Details

biocViews	Bayesian, ImmunoOncology, Metagenomics, Software
Version	1.6.1
In Bioconductor since	BioC 3.5 (R-3.4) (2 years)
License	MIT + file LICENSE
Depends	R (>= 3.5.1), rstan (>= 2.17.4)
Imports	coda (>= 0.18.1), mvtnorm, stringr
LinkingTo
Suggests	knitr, rmarkdown, methods, testthat
SystemRequirements	C++11
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	banocc_1.6.1.tar.gz
Windows Binary	banocc_1.6.1.zip
Mac OS X 10.11 (El Capitan)	banocc_1.6.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/banocc
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/banocc
Package Short Url	http://bioconductor.org/packages/banocc/
Package Downloads Report	Download Stats