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

Develop an integrative environment where multiple assays are managed and preprocessed for genomic data analysis.

AuthorMultiAssay SIG
Date of publicationNone
MaintainerMarcel Ramos <mramos09@gmail.com>
LicenseArtistic-2.0
Version1.0.1

View on Bioconductor

Functions

API Man page
assay,ANY,missing-method Man page
assay,ExperimentList,missing-method Man page
assay,MultiAssayExperiment,missing-method Man page
assay,RangedRaggedAssay,ANY-method Man page
complete.cases,MultiAssayExperiment-method Man page
dimnames,ExperimentList-method Man page
dimnames,MultiAssayExperiment-method Man page
dimnames<-,RangedRaggedAssay,list-method Man page
dimnames,RangedRaggedAssay-method Man page
dim,RangedRaggedAssay-method Man page
ExperimentList Man page
.ExperimentList Man page
ExperimentList,ANY-method Man page
ExperimentList-class Man page
ExperimentList,missing-method Man page
experiments Man page
experiments<- Man page
experiments<-,MultiAssayExperiment,ExperimentList-method Man page
experiments,MultiAssayExperiment-method Man page
getHits Man page
getHits,ANY,character-method Man page
getHits,ANY,GRanges-method Man page
getHits,GRanges,GRanges-method Man page
getHits,MultiAssayExperiment,character-method Man page
getHits,MultiAssayExperiment,GRanges-method Man page
getHits,RangedRaggedAssay,character-method Man page
getHits,RangedSummarizedExperiment,GRanges-method Man page
hasAssay Man page
isEmpty,MultiAssayExperiment-method Man page
length,MultiAssayExperiment-method Man page
listToMap Man page
listToMap Man page
mapToList Man page
metadata<-,MultiAssayExperiment-method Man page
metadata,MultiAssayExperiment-method Man page
MultiAssayExperiment Man page
[,MultiAssayExperiment,ANY,ANY,ANY-method Man page
[,MultiAssayExperiment,ANY-method Man page
MultiAssayExperiment-class Man page
$<-,MultiAssayExperiment-method Man page
$,MultiAssayExperiment-method Man page
MultiAssayExperiment-package Man page
names,MultiAssayExperiment-method Man page
ncol,RangedRaggedAssay-method Man page
nrow,RangedRaggedAssay-method Man page
pData<-,MultiAssayExperiment,DataFrame-method Man page
pData,MultiAssayExperiment-method Man page
PrepMultiAssay Man page
RangedRaggedAssay Man page
.RangedRaggedAssay Man page
[,RangedRaggedAssay,ANY,ANY,ANY-method Man page
[,RangedRaggedAssay,ANY-method Man page
RangedRaggedAssay-class Man page
[,RangedRaggedAssay,GRanges,ANY,ANY-method Man page
[,RangedRaggedAssay,GRanges-method Man page
sampleMap Man page
sampleMap<- Man page
sampleMap<-,MultiAssayExperiment,DataFrame-method Man page
sampleMap,MultiAssayExperiment-method Man page
show,ExperimentList-method Man page
show,MultiAssayExperiment-method Man page
show,RangedRaggedAssay-method Man page
subsetByAssay Man page
subsetByAssay,MultiAssayExperiment-method Man page
subsetByColumn Man page
subsetByColumn,MultiAssayExperiment,ANY-method Man page
subsetByColumn,MultiAssayExperiment,character-method Man page
subsetByColumn,MultiAssayExperiment,list-method Man page
subsetByColumn,MultiAssayExperiment,List-method Man page
subsetByRow Man page
subsetByRow,MultiAssayExperiment,ANY-method Man page
subsetByRow,MultiAssayExperiment,GRanges-method Man page
subsetByRow,MultiAssayExperiment,GRangesORcharacter-method Man page
subsetByRow,MultiAssayExperiment,list-method Man page
subsetByRow,MultiAssayExperiment,List-method Man page
updateObject,MultiAssayExperiment-method Man page

Files

MultiAssayExperiment/DESCRIPTION
MultiAssayExperiment/NAMESPACE
MultiAssayExperiment/R
MultiAssayExperiment/R/API.R MultiAssayExperiment/R/ExperimentList-class.R MultiAssayExperiment/R/MultiAssayExperiment-class.R MultiAssayExperiment/R/MultiAssayExperiment-methods.R MultiAssayExperiment/R/MultiAssayExperiment-pkg.R MultiAssayExperiment/R/MultiAssayExperiment.R MultiAssayExperiment/R/PrepMultiAssay.R MultiAssayExperiment/R/RangedRaggedAssay-class.R MultiAssayExperiment/R/assay-methods.R MultiAssayExperiment/R/hasAssay.R MultiAssayExperiment/R/listToMap.R MultiAssayExperiment/R/mapToList.R MultiAssayExperiment/R/zzz.R
MultiAssayExperiment/README.md
MultiAssayExperiment/build
MultiAssayExperiment/build/vignette.rds
MultiAssayExperiment/inst
MultiAssayExperiment/inst/NEWS
MultiAssayExperiment/inst/doc
MultiAssayExperiment/inst/doc/MultiAssayExperiment.R
MultiAssayExperiment/inst/doc/MultiAssayExperiment.Rmd
MultiAssayExperiment/inst/doc/MultiAssayExperiment.html
MultiAssayExperiment/inst/doc/UsingHDF5Array.R
MultiAssayExperiment/inst/doc/UsingHDF5Array.Rmd
MultiAssayExperiment/inst/doc/UsingHDF5Array.html
MultiAssayExperiment/inst/doc/pradMAEO-RTCGAToolbox.R
MultiAssayExperiment/inst/doc/pradMAEO-RTCGAToolbox.Rmd
MultiAssayExperiment/inst/doc/pradMAEO-RTCGAToolbox.html
MultiAssayExperiment/inst/extdata
MultiAssayExperiment/inst/extdata/exMatrix.R
MultiAssayExperiment/inst/extdata/exMatrix.h5
MultiAssayExperiment/inst/scripts
MultiAssayExperiment/inst/scripts/ExperimentList-Ex.R
MultiAssayExperiment/inst/scripts/MultiAssayExperiment-Ex.R
MultiAssayExperiment/inst/scripts/RangedRaggedAssay-Ex.R
MultiAssayExperiment/inst/scripts/getHits-Ex.R
MultiAssayExperiment/inst/scripts/listToMap-Ex.R
MultiAssayExperiment/inst/scripts/sampleMap-Ex.R
MultiAssayExperiment/man
MultiAssayExperiment/man/API.Rd MultiAssayExperiment/man/ExperimentList-class.Rd MultiAssayExperiment/man/ExperimentList.Rd MultiAssayExperiment/man/MultiAssayExperiment-class.Rd MultiAssayExperiment/man/MultiAssayExperiment.Rd MultiAssayExperiment/man/PrepMultiAssay.Rd MultiAssayExperiment/man/RangedRaggedAssay-class.Rd MultiAssayExperiment/man/RangedRaggedAssay.Rd MultiAssayExperiment/man/assay-RangedRaggedAssay-ANY-method.Rd MultiAssayExperiment/man/experiments-set.Rd MultiAssayExperiment/man/experiments.Rd MultiAssayExperiment/man/getHits.Rd MultiAssayExperiment/man/hasAssay.Rd MultiAssayExperiment/man/mapToList.Rd MultiAssayExperiment/man/sampleMap-set.Rd MultiAssayExperiment/man/sampleMap.Rd MultiAssayExperiment/man/subsetByAssay.Rd MultiAssayExperiment/man/subsetByColumn.Rd MultiAssayExperiment/man/subsetByRow.Rd
MultiAssayExperiment/tests
MultiAssayExperiment/tests/testthat
MultiAssayExperiment/tests/testthat.R
MultiAssayExperiment/tests/testthat/test-ExperimentList-class.R
MultiAssayExperiment/tests/testthat/test-MultiAssayExperiment.R
MultiAssayExperiment/tests/testthat/test-colnameOrder.R
MultiAssayExperiment/tests/testthat/test-constructors.R
MultiAssayExperiment/tests/testthat/test-drop.R
MultiAssayExperiment/tests/testthat/test-emptybuilders.R
MultiAssayExperiment/tests/testthat/test-methods.R
MultiAssayExperiment/tests/testthat/test-rowcolnames.R
MultiAssayExperiment/tests/testthat/test-subset.R
MultiAssayExperiment/vignettes
MultiAssayExperiment/vignettes/MultiAssayExperiment.Rmd
MultiAssayExperiment/vignettes/UsingHDF5Array.Rmd
MultiAssayExperiment/vignettes/pradMAEO-RTCGAToolbox.Rmd

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