banocc

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see banocc.

Bayesian ANalysis Of Compositional Covariance


Bioconductor version: 3.17

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 "4.3") 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

Details

biocViews Bayesian, ImmunoOncology, Metagenomics, Software
Version 1.24.0
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
URL
See More
Suggests knitr, rmarkdown, methods, testthat, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package banocc_1.24.0.tar.gz
Windows Binary banocc_1.24.0.zip
macOS Binary (x86_64) banocc_1.24.0.tgz
macOS Binary (arm64) banocc_1.24.0.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
Old Source Packages for BioC 3.17 Source Archive