methylumi-package | Handle Illumina methylation data |
betas | methylumi accessors |
betas-method | Class to hold Illumina Methylation data |
betas<- | methylumi accessors |
betas<--method | Class to hold Illumina Methylation data |
boxplot-method | Class to hold Illumina Methylation data |
coerce-method | Class "MethyLumiM": for Illumina Methylation microarray data |
combine-method | Class "MethyLumiM": for Illumina Methylation microarray data |
combine-method | Class to hold Illumina Methylation data |
controlData | Class "MethyLumiM": for Illumina Methylation microarray data |
controlData-method | Class "MethyLumiM": for Illumina Methylation microarray data |
controlData<- | Class "MethyLumiM": for Illumina Methylation microarray data |
controlData<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
controlTypes | Methods for dealing with control data for Illumina methylation data. |
controlTypes-method | Class to hold Illumina Methylation QC data |
controlTypes-method | Class to hold Illumina Methylation data |
corplot | methylumi accessors |
corplot-method | Class to hold Illumina Methylation data |
detection | Class "MethyLumiM": for Illumina Methylation microarray data |
detection-method | Class "MethyLumiM": for Illumina Methylation microarray data |
detection<- | Class "MethyLumiM": for Illumina Methylation microarray data |
detection<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
estimateM | Estimate methylation M-value matrix |
exprs-method | Class to hold Illumina Methylation QC data |
exprs-method | Class to hold Illumina Methylation data |
exprs<--method | Class to hold Illumina Methylation QC data |
exprs<--method | Class to hold Illumina Methylation data |
extractBarcodeAndPosition | Extract the Barcode and Position Information from Sentrix ID |
featureFilter | Annotation-based Filtering of Features (CpG sites) in a MethyLumiSet or MethyLumiM object |
featureFilter-method | Annotation-based Filtering of Features (CpG sites) in a MethyLumiSet or MethyLumiM object |
getAssayDataNameSubstitutions | Return a data.frame of AssayData name substitutions. |
getHistory | methylumi accessors |
getHistory-method | Class "MethyLumiM": for Illumina Methylation microarray data |
getHistory-method | Class to hold Illumina Methylation data |
hist-method | Class to hold Illumina Methylation data |
initialize-method | Class "MethyLumiM": for Illumina Methylation microarray data |
initialize-method | Class to hold Illumina Methylation QC data |
initialize-method | Class to hold Illumina Methylation data |
methylated | methylumi accessors |
methylated-method | The base class for storing Illumina Methylation data |
methylated-method | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated-method | Class to hold Illumina Methylation data |
methylated.N | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated.N-method | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated.N<- | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated.N<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated<- | methylumi accessors |
methylated<--method | The base class for storing Illumina Methylation data |
methylated<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
methylated<--method | Class to hold Illumina Methylation data |
methylumi | Handle Illumina methylation data |
MethyLumi-class | The base class for storing Illumina Methylation data |
MethyLumiM-class | Class "MethyLumiM": for Illumina Methylation microarray data |
MethyLumiQC-class | Class to hold Illumina Methylation QC data |
methylumiR | Load data from Illumina methylation platform |
MethyLumiSet-class | Class to hold Illumina Methylation data |
mldat | Example SAM format Illumina methylation dataset |
normalizeMethyLumiSet | Normalize a MethyLumiSet, accounting for dye bias |
pairs-method | Class to hold Illumina Methylation data |
plotSampleIntensities | Plot the sample intensities. |
plotSampleIntensities-method | Class to hold Illumina Methylation data |
pvals | methylumi accessors |
pvals-method | The base class for storing Illumina Methylation data |
pvals<- | methylumi accessors |
pvals<--method | The base class for storing Illumina Methylation data |
QCdata | methylumi accessors |
QCdata-method | Class to hold Illumina Methylation data |
QCdata<- | methylumi accessors |
QCdata<--method | Class to hold Illumina Methylation data |
QCDataOrNULL-class | Class to hold Illumina Methylation QC data |
qcplot | Methods for dealing with control data for Illumina methylation data. |
qcplot-method | The base class for storing Illumina Methylation data |
qcplot-method | Class to hold Illumina Methylation QC data |
qcplot-method | Class to hold Illumina Methylation data |
show-method | Class to hold Illumina Methylation data |
summary-method | The base class for storing Illumina Methylation data |
unmethylated | methylumi accessors |
unmethylated-method | The base class for storing Illumina Methylation data |
unmethylated-method | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated-method | Class to hold Illumina Methylation data |
unmethylated.N | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated.N-method | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated.N<- | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated.N<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated<- | methylumi accessors |
unmethylated<--method | The base class for storing Illumina Methylation data |
unmethylated<--method | Class "MethyLumiM": for Illumina Methylation microarray data |
unmethylated<--method | Class to hold Illumina Methylation data |
varFilter | Variation-based Filtering of Features (CpG sites) in a MethyLumiSet or MethyLumiM object |
varFilter-method | Variation-based Filtering of Features (CpG sites) in a MethyLumiSet or MethyLumiM object |
[-method | Class "MethyLumiM": for Illumina Methylation microarray data |
[-method | Class to hold Illumina Methylation data |