To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bacon")

In most cases, you don't need to download the package archive at all.

bacon

DOI: 10.18129/B9.bioc.bacon    

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

Controlling bias and inflation in association studies using the empirical null distribution

Bioconductor version: Development (3.6)

Bacon can be used to remove inflation and bias often observed in epigenome- and transcriptome-wide association studies. To this end bacon constructs an empirical null distribution using a Gibbs Sampling algorithm by fitting a three-component normal mixture on z-scores.

Author: Maarten van Iterson [aut, cre], Erik van Zwet [ctb]

Maintainer: Maarten van Iterson <mviterson at gmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("bacon")

Documentation

HTML R Script Controlling bias and inflation in association studies using the empirical null distribution
PDF   Reference Manual
Text   NEWS

Details

biocViews BatchEffect, Bayesian, GenomeWideAssociation, MethylationArray, MultipleComparison, RNASeq, Regression, Software, StatisticalMethod, Transcriptomics
Version 1.5.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License GPL (>= 2)
Depends R (>= 3.3), methods, stats, ggplot2, graphics, BiocParallel, ellipse
Imports
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, testthat, roxygen2
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package bacon_1.5.0.tar.gz
Windows Binary bacon_1.5.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) bacon_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/bacon
Package Short Url http://bioconductor.org/packages/bacon/
Package Downloads Report Download Stats

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