spkTools: Methods for Spike-in Arrays
Version 1.32.0

The package contains functions that can be used to compare expression measures on different array platforms.

AuthorMatthew N McCall <mccallm@gmail.com>, Rafael A Irizarry <rafa@jhu.edu>
Bioconductor views Microarray Software Technology
Date of publicationNone
MaintainerMatthew N McCall <mccallm@gmail.com>
LicenseGPL (>= 2)
Version1.32.0
URL http://bioconductor.org
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("spkTools")

Popular man pages

affy: SpikeInExpressionSet of Affymetrix Spike-in Experiment Data
plotSpkBox: Boxplots of Fold Changes Calculated by spkBox
spkAnova: Anova Model for Microarray Spike-in Data
spkBox: Fold Change Calculations
spkMA: MA Plots
spkPot: Probability of being in the Top
spkQuantile: Empirical Quantiles
See all...

All man pages Function index File listing

Man pages

affy: SpikeInExpressionSet of Affymetrix Spike-in Experiment Data
plotSpkBox: Boxplots of Fold Changes Calculated by spkBox
SpikeInExpressSet-class: Class to Contain and Describe High-Throughput Expression...
spkAccSD: Accuracy Standard Deviation
spkAll: Spike-in Functions Wrapper
spkAnova: Anova Model for Microarray Spike-in Data
spkBal: Quantify Microarry Spike-in Design Imbalance
spkBox: Fold Change Calculations
spkDensity: Spike-in Density Plot
spkGNN: Genes Needed to Detect N True Positives
spkMA: MA Plots
spkPair: Pairwise Comparisons for Spike-in Genes
spkPairNS: Pairwise Comparisons for Non-Spike-in Genes
spkPot: Probability of being in the Top
spkQuantile: Empirical Quantiles
spkSlope: Signal Detect Slope Plot
spkTools: Tools for Spike-in Data Analysis and Visualization
spkVar: Spike-in Variance
summarySpkBox: Summary of Fold Changes Calculated by spkBox

Functions

SpikeInExpressionSet Man page
SpikeInExpressionSet-class Man page
SpikeInExpressionSet-methods Man page
affy Man page
class:SpikeInExpressionSet Man page
initialize,SpikeInExpressionSet-method Man page
plotSpkBox Man page Source code
spikeIn Man page
spikeIn,SpikeInExpressionSet-method Man page
spikeIn<-,SpikeInExpressionSet,matrix-method Man page
spkAccSD Man page Source code
spkAll Man page Source code
spkAnova Man page Source code
spkBal Man page Source code
spkBox Man page Source code
spkDensity Man page Source code
spkGNN Man page Source code
spkMA Man page Source code
spkPair Man page Source code
spkPairNS Man page Source code
spkPot Man page Source code
spkQuantile Man page Source code
spkSlope Man page Source code
spkSplit Man page
spkSplit,SpikeInExpressionSet-method Man page
spkTools Man page
spkTools-package Man page
spkVar Man page Source code
summarySpkBox Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R
R/AllGenerics.R
R/SpikeInExpressionSet-methods.R
R/plotSpkBox.R
R/spkAccSD.R
R/spkAll.R
R/spkAnova.R
R/spkBal.R
R/spkBox.R
R/spkDensity.R
R/spkGNN.R
R/spkMA.R
R/spkPair.R
R/spkPairNS.R
R/spkPot.R
R/spkQuantile.R
R/spkSlope.R
R/spkVar.R
R/summarySpkBox.R
build
build/vignette.rds
data
data/affy.rda
inst
inst/doc
inst/doc/spkDoc.R
inst/doc/spkDoc.Rnw
inst/doc/spkDoc.pdf
man
man/SpikeInExpressSet-class.Rd
man/affy.Rd
man/plotSpkBox.Rd
man/spkAccSD.Rd
man/spkAll.Rd
man/spkAnova.Rd
man/spkBal.Rd
man/spkBox.Rd
man/spkDensity.Rd
man/spkGNN.Rd
man/spkMA.Rd
man/spkPair.Rd
man/spkPairNS.Rd
man/spkPot.Rd
man/spkQuantile.Rd
man/spkSlope.Rd
man/spkTools.Rd
man/spkVar.Rd
man/summarySpkBox.Rd
vignettes
vignettes/spkDoc.Rnw
vignettes/spkDoc.bib
spkTools documentation built on May 20, 2017, 10:09 p.m.

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