ELBOW

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last 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>

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

Installation

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


if (!require("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")
Using ELBOW --- the definitive ELBOW tutorial PDF R Script
Reference Manual PDF
LICENSE Text

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) (10 years)
License file LICENSE
Depends R (>= 2.15.0)
Imports graphics, stats, utils
System Requirements
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Suggests DESeq, GEOquery, limma, simpleaffy, affyPLM, RColorBrewer, hgu133plus2cdf, hgu133plus2probe
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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
Bioc Package Browser https://code.bioconductor.org/browse/ELBOW/
Package Short Url https://bioconductor.org/packages/ELBOW/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive