Create Classes and Functions for Managing Multiple Assays on Sets of Samples

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Documentation for package ‘MultiAssayExperiment’ version 1.0.1

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MultiAssayExperiment-package MultiAssayExperiment: Build an integrative multi-assay container
$-method An integrative MultiAssay class for experiment data
$<--method An integrative MultiAssay class for experiment data
.ExperimentList A container for multi-experiment data
.RangedRaggedAssay An extension of the GRangesList class
API Refer to the API documentation
assay-method A container for multi-experiment data
assay-method An integrative MultiAssay class for experiment data
assay-method Create a Matrix of score values using a GRanges or own ranges
complete.cases-method An integrative MultiAssay class for experiment data
dim-method An extension of the GRangesList class
dimnames-method A container for multi-experiment data
dimnames-method An integrative MultiAssay class for experiment data
dimnames-method An extension of the GRangesList class
dimnames<--method An extension of the GRangesList class
ExperimentList experiment Acessor function for the 'ExperimentList' slot of a 'MultiAssayExperiment' object
ExperimentList-class A container for multi-experiment data
ExperimentList-method A container for multi-experiment data
experiments Accessor function for the 'ExperimentList' slot of a 'MultiAssayExperiment' object
experiments-method An integrative MultiAssay class for experiment data
experiments<- Replace an 'ExperimentList' slot value with a given 'ExperimentList' class object
experiments<--method An integrative MultiAssay class for experiment data
getHits Find hits by class type
getHits-method An extension of the GRangesList class
getHits-method Find hits by class type
hasAssay Checking assay method for any class
isEmpty-method An integrative MultiAssay class for experiment data
length-method An integrative MultiAssay class for experiment data
listToMap Convert map from data.frame or DataFrame to list and vice versa
mapToList Convert map from data.frame or DataFrame to list and vice versa
metadata-method An integrative MultiAssay class for experiment data
metadata<--method An integrative MultiAssay class for experiment data
MultiAssayExperiment MultiAssayExperiment: Build an integrative multi-assay container
MultiAssayExperiment-class An integrative MultiAssay class for experiment data
names-method An integrative MultiAssay class for experiment data
ncol-method An extension of the GRangesList class
nrow-method An extension of the GRangesList class
pData-method An integrative MultiAssay class for experiment data
pData<--method An integrative MultiAssay class for experiment data
PrepMultiAssay Prepare a 'MultiAssayExperiment' instance
RangedRaggedAssay Create a RangedRaggedAssay
RangedRaggedAssay-class An extension of the GRangesList class
sampleMap Accessor function for the 'sampleMap' slot of a 'MultiAssayExperiment' object
sampleMap-method An integrative MultiAssay class for experiment data
sampleMap<- Replace a slot value with a given 'DataFrame'
sampleMap<--method An integrative MultiAssay class for experiment data
show-method A container for multi-experiment data
show-method An integrative MultiAssay class for experiment data
show-method An extension of the GRangesList class
subsetByAssay Subset 'MultiAssayExperiment' object by Assay type
subsetByAssay-method Subset 'MultiAssayExperiment' object by Assay type
subsetByColumn Subset 'MultiAssayExperiment' object
subsetByColumn-method Subset 'MultiAssayExperiment' object
subsetByRow Subset 'MultiAssayExperiment' object by Feature
subsetByRow-method Subset 'MultiAssayExperiment' object by Feature
updateObject-method An integrative MultiAssay class for experiment data
[-method An integrative MultiAssay class for experiment data
[-method An extension of the GRangesList class