ELBOW

DOI: 10.18129/B9.bioc.ELBOW    

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

ELBOW - Evaluating foLd change By the lOgit Way

Bioconductor version: 3.9

Elbow an improved fold change test that uses cluster analysis and pattern recognition to set cut off limits that are derived directly from intrareplicate variance without assuming a normal distribution for as few as 2 biological replicates. Elbow also provides the same consistency as fold testing in cross platform analysis. Elbow has lower false positive and false negative rates than standard fold testing when both are evaluated using T testing and Statistical Analysis of Microarray using 12 replicates (six replicates each for initial and final conditions). Elbow provides a null value based on initial condition replicates and gives error bounds for results to allow better evaluation of significance.

Author: Xiangli Zhang, Natalie Bjorklund, Graham Alvare, Tom Ryzdak, Richard Sparling, Brian Fristensky

Maintainer: Graham Alvare <alvare at cc.umanitoba.ca>, Xiangli Zhang <justinzhang.xl at gmail.com>

Installation

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

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

BiocManager::install("ELBOW")

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("ELBOW")

 

PDF	R Script	Using ELBOW --- the definitive ELBOW tutorial
PDF		Reference Manual
Text		LICENSE

Details

biocViews	GeneExpression, ImmunoOncology, Microarray, MultiChannel, OneChannel, RNASeq, Sequencing, Software, Technology, TwoChannel
Version	1.20.0
In Bioconductor since	BioC 2.14 (R-3.1) (5.5 years)
License	file LICENSE
Depends	R (>= 2.15.0)
Imports	graphics, stats, utils
LinkingTo
Suggests	DESeq, GEOquery, limma, simpleaffy, affyPLM, RColorBrewer, hgu133plus2cdf, hgu133plus2probe
SystemRequirements
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	ELBOW_1.20.0.tar.gz
Windows Binary	ELBOW_1.20.0.zip (64-bit only)
Mac OS X 10.11 (El Capitan)	ELBOW_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ELBOW
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ELBOW
Package Short Url	https://bioconductor.org/packages/ELBOW/
Package Downloads Report	Download Stats