banocc

DOI: 10.18129/B9.bioc.banocc    

Bayesian ANalysis Of Compositional Covariance

Bioconductor version: Release (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>

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

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("banocc", version = "3.8")

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, Metagenomics, Software
Version 1.6.0
In Bioconductor since BioC 3.5 (R-3.4) (1.5 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_1.6.0.tar.gz
Windows Binary banocc_1.6.0.zip
Mac OS X 10.11 (El Capitan) banocc_1.6.0.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

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