Files in jmacdon/oligoClasses

Classes for high-throughput arrays supported by oligo and crlmm

R/AllClasses.R R/AllGenerics.R R/functions.R R/initialize-methods.R R/methods-AlleleSet.R R/methods-AnnotatedDataFrame.R R/methods-AssayData.R R/methods-BeadStudioSet.R R/methods-BeadStudioSetList.R R/methods-CNSet.R R/methods-CopyNumberSet.R R/methods-FeatureSet.R R/methods-GRanges.R R/methods-GenomeAnnotatedDataFrame.R R/methods-PDInfo.R R/methods-RangedDataCNV.R R/methods-SnpFeatureSet.R R/methods-SnpSet.R R/methods-SummarizedExperiment.R R/methods-gSet.R R/methods-gSetList.R R/methods-oligoSnpSet.R R/show-methods.R R/utils-general.R R/utils-lds.R R/utils-parallel.R R/zzz.R inst/unitTests/test_RangedDataCNV-class.R inst/unitTests/test_annotation.R inst/unitTests/test_classes.R inst/unitTests/test_conversions.R man/AlleleSet-class.Rd man/AlleleSet-methods.Rd man/AssayData-methods.Rd man/AssayDataList.Rd man/BeadStudioSet-class.Rd man/BeadStudioSetList-class.Rd man/CNSet-class.Rd man/ClassesNotExported.Rd man/CopyNumberSet-class.Rd man/CopyNumberSet-methods.Rd man/DBPDInfo-class.Rd man/FeatureSetExtensions-class.Rd man/GRanges-methods.Rd man/GenomeAnnotatedDataFrame-class.Rd man/GenomeAnnotatedDataFrameFrom-methods.Rd man/SnpSet-methods.Rd man/SnpSet2-class.Rd man/SnpSuperSet-class.Rd man/SummarizedExperiment-methods.Rd man/affyPlatforms.Rd man/annotationPackages.Rd man/assayDataList-methods.Rd man/batch.Rd man/batchStatistics.Rd man/celfileDate.Rd man/celfileName.Rd man/checkExists.Rd man/checkOrder.Rd man/chromosome-methods.Rd man/chromosome2integer.Rd man/clusterOpts.Rd man/clusterOptsDeprecated.Rd man/createFF.Rd man/data-efsExample.Rd man/data-scqsExample.Rd man/data-sfsExample.Rd man/data-sqsExample.Rd man/db.Rd man/defunct.Rd man/exprs-methods.Rd man/featureDataList-methods.Rd man/ff_matrix.Rd man/ff_or_matrix-class.Rd man/ffdf.Rd man/fileConnections.Rd man/flags.Rd man/gSet-class.Rd man/gSetList-class.Rd man/generics.Rd man/genomeBuild.Rd man/geometry-methods.Rd man/getBar.Rd man/getSequenceLengths.Rd man/i2p_p2i.Rd man/integerMatrix.Rd man/is.ffmatrix.Rd man/isPackageLoaded.Rd man/isSnp-methods.Rd man/kind.Rd man/largeObjects.Rd man/ldOpts.Rd man/length-methods.Rd man/library2.Rd man/list.celfiles.Rd man/locusLevelData.Rd man/makeFeatureGRanges.Rd man/manufacturer-methods.Rd man/ocLapply.Rd man/oligoSetExample.Rd man/oligoSnpSet-methods.Rd man/parStatus.Rd man/pdPkgFromBioC.Rd man/platform-methods.Rd man/pmFragmentLength-methods.Rd man/position-methods.Rd man/requireAnnotation.Rd man/requireClusterPkgSetDeprecated.Rd man/sampleNames-methods.Rd man/splitVec.Rd tests/doRUnit.R vignettes/scriptsForExampleData/CreateExampleData.R