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banocc

This is the development version of banocc; for the stable release version, see banocc.

Bayesian ANalysis Of Compositional Covariance


Bioconductor version: Development (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")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Bayesian, ImmunoOncology, Metagenomics, Software
Version 1.27.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License MIT + file LICENSE
Depends R (>= 3.5.1), rstan (>= 2.17.4)
Imports coda (>= 0.18.1), mvtnorm, stringr
System Requirements
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Suggests knitr, rmarkdown, methods, testthat, BiocStyle
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Package Archives

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

Source Package banocc_1.27.0.tar.gz
Windows Binary banocc_1.27.0.zip
macOS Binary (x86_64) banocc_1.27.0.tgz
macOS Binary (arm64) banocc_1.27.0.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