Last data update: 2014.03.03
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beadarraySNP
Package: beadarraySNP
Type: Package
Title: Normalization and reporting of Illumina SNP bead arrays
Version: 1.38.0
Date: 2014-10-10
Author: Jan Oosting
Maintainer: Jan Oosting <j.oosting@lumc.nl>
Depends: methods, Biobase (>= 2.14), quantsmooth
Suggests: aCGH, affy, limma, snapCGH, beadarray, DNAcopy
Description: Importing data from Illumina SNP experiments and
performing copy number calculations and reports.
License: GPL-2
biocViews: CopyNumberVariation, SNP, GeneticVariability, TwoChannel,
Preprocessing, DataImport
NeedsCompilation: no
Packaged: 2016-05-04 02:53:27 UTC; biocbuild
● BiocViews: CopyNumberVariation, DataImport, GeneticVariability, Preprocessing, SNP, TwoChannel
●
14 images,
40 functions,
1 datasets
●
Reverse Depends: 0
Install log
* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'beadarraySNP' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'beadarraySNP'
finding HTML links ... done
BeadstudioQC html
CopynumberConversion html
Datasets html
GenomicReports html
GetBeadStudioSampleNames html
PolarTransforms html
QCIllumina-class html
Sample_Map2Samplesheet html
SnpSetSegments-class html
finding level-2 HTML links ... done
alterCN html
arrayType html
backgroundCorrect.SNP html
backgroundEstimate html
calculateLOH html
calculateQCarray html
class.SnpSetIllumina html
compareGenotypes html
createCNSummary html
dist.GT html
getDNAindex html
heterozygosity html
heterozygousSNPs html
interactiveCNselect html
normalizeBetweenAlleles.SNP html
normalizeBetweenSubsamples.SNP html
normalizeLoci.SNP html
normalizeWithinArrays.SNP html
pdfChromosomesSmoothCopyNumber html
pdfQC html
plotGoldenGate4OPA html
plotQC html
read.SnpSetIllumina html
removeLowQualityProbes html
removeLowQualitySamples html
renameOPA html
reportGenotypeSegmentation html
reportSamplePanelQC-methods html
segmentate html
setRealCN html
smoothed.intensity html
standardNormalization html
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (beadarraySNP)
Making 'packages.html' ... done
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