To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("bacon")
In most cases, you don't need to download the package archive at all.
bacon
|
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see bacon.
Controlling bias and inflation in association studies using the empirical null distribution
Bioconductor version: 3.3
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("https://bioconductor.org/biocLite.R")
biocLite("bacon")
Documentation
| HTML | R Script | Controlling bias and inflation in association studies using the empirical null distribution |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | BatchEffect, Bayesian, GenomeWideAssociation, MethylationArray, MultipleComparison, RNASeq, Regression, Software, StatisticalMethod, Transcriptomics |
| Version | 1.0.5 |
| In Bioconductor since | BioC 3.3 (R-3.3) (< 6 months) |
| License | GPL (>= 2) |
| Depends | R (>= 3.3), methods, stats, ggplot2, graphics, BiocParallel, ellipse |
| Imports | |
| LinkingTo | |
| Suggests | BiocStyle, knitr, rmarkdown, testthat, roxygen2 |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/mvaniterson/bacon |
| BugReports | https://github.com/mvaniterson/bacon/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | bacon_1.0.5.tar.gz |
| Windows Binary | bacon_1.0.5.zip (32- & 64-bit) |
| Mac OS X 10.9 (Mavericks) | bacon_1.0.5.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/bacon/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/bacon/ |
| Package Downloads Report | Download Stats |
Documentation »
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