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codelink (version 1.40.2)

Manipulation of Codelink microarray data

Description

This package facilitates reading, preprocessing and manipulating Codelink microarray data. The raw data must be exported as text file using the Codelink software.

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Version

Version

1.40.2

License

GPL-2

Issues

0

Pull Requests

0

Stars

0

Forks

1

Maintainer

Diego Diez

Last Published

February 15th, 2017

Functions in codelink (1.40.2)

printHead

Print briefly a Codelink object
Codelink-class

Class Codelink
bkgdCorrect

Background correction of intensity values.
codelink.example

Dataset of class 'Codelink'
averageProbes

averageProbes
SNR

Calculate SNR
CodelinkSet-class

Class CodelinkSet
reportCodelink

Write a report of genes selected in HTML
arrayNew

Create a new x11 device
plotCorrelation

Plot correlation scatterplot between two arrays
CodelinkSetUnique-class

Class CodelinkSetUnique
na2false

Set NAs to FALSE
plotCV

Plot of CV
decDetect

Determine decimal type of Codelink files
selCV

Select based on CV cutoff.
imageCodelink

Image plot of Codelink arrays
readHeader

Read Header from Codelink Bioarrays Files
logCodelink

Application of logCodelink to Codelink object
plotMA

MA plot
arraySize

Determine the size of the array
fc2Cond

Select probes based on fold change calculation
writeCodelink

Write a Codelink object to file.
dim.Codelink

Return the dimension of a Codelink object.
as.matrix.Codelink

Return a matrix of intensity values
readCodelink

Read Codelink Bioarrays Data
codset

Dataset of class 'CodelinkSet'
codPlot

Diagnostic plots for CodelinkSet object.
cutCV

Calculate cutoff based in CV.
plotDensities

Plot Densities
readHeaderXLS

Read Header from XLS exported Codelink Bioarrays Files
createWeights

Create weight for Codelink chips
normalize

Normalization wrapper for Codelink/CodelinkSet objects.
Nondocumented-objects

Here goes every undocumented function.
mergeArray

Merge Codelink Bioarrays Data