banocc

Bayesian ANalysis Of Compositional Covariance

Bioconductor version: Release (3.19)

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>

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

Installation

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


if (!require("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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Bayesian, ImmunoOncology, Metagenomics, Software
Version	1.28.0
In Bioconductor since	BioC 3.5 (R-3.4) (7.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.5.1), rstan (>= 2.17.4)
Imports	coda (>= 0.18.1), mvtnorm, stringr
System Requirements
URL

Suggests	knitr, rmarkdown, methods, testthat, BiocStyle
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Build Report	Build Report

Package Archives

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

Source Package	banocc_1.28.0.tar.gz
Windows Binary (x86_64)	banocc_1.28.0.zip
macOS Binary (x86_64)	banocc_1.28.0.tgz
macOS Binary (arm64)	banocc_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/banocc
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/banocc
Bioc Package Browser	https://code.bioconductor.org/browse/banocc/
Package Short Url	https://bioconductor.org/packages/banocc/
Package Downloads Report	Download Stats