covEB

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see covEB.

Empirical Bayes estimate of block diagonal covariance matrices


Bioconductor version: 3.9

Using bayesian methods to estimate correlation matrices assuming that they can be written and estimated as block diagonal matrices. These block diagonal matrices are determined using shrinkage parameters that values below this parameter to zero.

Author: C. Pacini

Maintainer: C. Pacini <clarepacini at gmail.com>

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

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("covEB")

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("covEB")
covEB PDF R Script
Reference Manual PDF

Details

biocViews Bayesian, GeneExpression, ImmunoOncology, Microarray, Preprocessing, RNASeq, Software, StatisticalMethod
Version 1.10.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL-3
Depends R (>= 3.3), mvtnorm, igraph, gsl, Biobase, stats, LaplacesDemon, Matrix
Imports
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Suggests curatedBladderData
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Package Archives

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

Source Package covEB_1.10.0.tar.gz
Windows Binary covEB_1.10.0.zip
Mac OS X 10.11 (El Capitan) covEB_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/covEB
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/covEB
Bioc Package Browser https://code.bioconductor.org/browse/covEB/
Package Short Url https://bioconductor.org/packages/covEB/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive