Man pages for Bioconductor-mirror/beadarraySNP
Normalization and reporting of Illumina SNP bead arrays

alterCNalterCN
arrayTypeAccessor methods for QC objects
backgroundCorrect.SNPBackground correction
backgroundEstimateEstimate background intensities from foreground intensity
BeadstudioQCQuality control of Beadstudio report files
calculateLOHDetermine LOH in experiment
calculateQCarrayRetrieve QC information from a SnpSetIllumina object
class.SnpSetIlluminaClass to Contain Objects Describing High-Throughput SNP...
compareGenotypesCompare genotypes
CopynumberConversionConversion to Copynumber analysis objects
createCNSummarySummarization of Copy number states
DatasetsIllumina example data
dist.GTdist.GT
GenomicReportsGenomic reports
GetBeadStudioSampleNamesExtract samplenames from a report file
getDNAindexCalculate the DNA index based on assigned copy number values...
heterozygosityFind regions of homozygous SNPs
heterozygousSNPsRetrieve heterozygous SNPs
interactiveCNselectInteractive assignment of copynumbers to genomic segments
normalizeBetweenAlleles.SNPbetween Allele normalization
normalizeBetweenSubsamples.SNPNormalization between subsamples
normalizeLoci.SNPlocus normalization
normalizeWithinArrays.SNPWithin Array normalization
pdfChromosomesSmoothCopyNumberreportWrappers
pdfQCQCreport
plotGoldenGate4OPAPlot Golden Gate genomic view
plotQCSpatial plots of array QC information
PolarTransformsPolar transformations
QCIllumina-classClass "QCIllumina"
read.SnpSetIlluminaRead Experimental Data, Featuredata and Phenodata into an...
removeLowQualityProbesQuality control of SnpSetIllumina objects
removeLowQualitySamplesQuality control of SnpSetIllumina objects
renameOPAChange the linkage panel in a dataset
reportGenotypeSegmentationplot genomic view
reportSamplePanelQC-methodsreportSamplePanelQC
Sample_Map2SamplesheetConvert Beadstudio Sample Map file to samplesheet
segmentateSegmentation for SnpSetIllumina objects
setRealCNIntegrate state information into SNP object
smoothed.intensitySmooth intensity data
SnpSetSegments-classClass "SnpSetSegments"
standardNormalizationDefault complete normalization
Bioconductor-mirror/beadarraySNP documentation built on June 1, 2017, 4:25 a.m.