API for acidgenomics/r-acidexperiment
Acid Genomics Summarized Experiment

Global functions
.centerSizeFactors Source code
.exportAssays Source code
.exportColData Source code
.exportRowData Source code
.isSampleData Source code
.makeGeneMap Source code
.mapGenes Source code
AcidExperiment Man page
AcidExperiment-package Man page
AcidExperimentTestsURL Man page
DataFrame Man page
Ensembl2Entrez Man page
Ensembl2Entrez,RangedSummarizedExperiment-method Man page
Entrez2Ensembl Man page
GRanges Man page
Gene2Symbol Man page
Gene2Symbol,SummarizedExperiment-method Man page
RangedSummarizedExperiment-class Man page
SimpleList Man page
SummarizedExperiment Man page
SummarizedExperiment-class Man page
Tx2Gene Man page
Tx2Gene,SummarizedExperiment-method Man page
aggregate Man page
aggregate,Matrix-method Man page
aggregate,matrix-method Man page
aggregateCols Man page
aggregateCols,Matrix-method Man page
aggregateCols,SummarizedExperiment-method Man page
aggregateCols,matrix-method Man page
aggregateRows Man page
aggregateRows,Matrix-method Man page
aggregateRows,SummarizedExperiment-method Man page
aggregateRows,matrix-method Man page
as.SummarizedExperiment Man page
as.SummarizedExperiment,RangedSummarizedExperiment-method Man page
as.SummarizedExperiment,SummarizedExperiment-method Man page
assay Man page
assay<- Man page
assayNames Man page
assayNames<- Man page
assays Man page
assays<- Man page
autopadZeros Man page
autopadZeros,SummarizedExperiment-method Man page
autopadZeros,matrix-method Man page
calculateMetrics Man page
calculateMetrics,Matrix-method Man page
calculateMetrics,RangedSummarizedExperiment-method Man page
calculateMetrics,matrix-method Man page
camelCase Man page
camelCase,DataFrame-method Man page
camelCase,Matrix-method Man page
camelCase,Ranges-method Man page
camelCase,SummarizedExperiment-method Man page
camelCase,Vector-method Man page
camelCase,atomic-method Man page
camelCase,data.frame-method Man page
camelCase,factor-method Man page
camelCase,list-method Man page
camelCase,matrix-method Man page
coerce Man page
colData Man page
colData<- Man page
combine Man page
combine,SummarizedExperiment,SummarizedExperiment-method Man page
convertGenesToSymbols Man page
convertGenesToSymbols,GRanges-method Man page
convertGenesToSymbols,Matrix-method Man page
convertGenesToSymbols,SummarizedExperiment-method Man page
convertGenesToSymbols,character-method Man page
convertGenesToSymbols,matrix-method Man page
convertSampleIDsToNames Man page
convertSampleIDsToNames,SummarizedExperiment-method Man page
convertSymbolsToGenes Man page
convertSymbolsToGenes,SummarizedExperiment-method Man page
convertTranscriptsToGenes Man page
convertTranscriptsToGenes,Matrix-method Man page
convertTranscriptsToGenes,SummarizedExperiment-method Man page
convertTranscriptsToGenes,character-method Man page
convertTranscriptsToGenes,matrix-method Man page
correlation Man page
correlation,Matrix,Matrix-method Man page
correlation,Matrix,missingOrNULL-method Man page
correlation,SummarizedExperiment,SummarizedExperiment-method Man page
correlation,SummarizedExperiment,missingOrNULL-method Man page
correlation,matrix,matrix-method Man page
correlation,matrix,missingOrNULL-method Man page
correlation,numeric,numeric-method Man page
counts Man page
counts,SummarizedExperiment-method Man page
counts<- Man page
counts<-,SummarizedExperiment,Matrix-method Man page
counts<-,SummarizedExperiment,matrix-method Man page
decode Man page
decode,SummarizedExperiment-method Man page
detectLanes Man page Source code
dottedCase Man page
dottedCase,DataFrame-method Man page
dottedCase,Matrix-method Man page
dottedCase,Ranges-method Man page
dottedCase,SummarizedExperiment-method Man page
dottedCase,Vector-method Man page
dottedCase,atomic-method Man page
dottedCase,data.frame-method Man page
dottedCase,factor-method Man page
dottedCase,list-method Man page
dottedCase,matrix-method Man page
droplevels Man page
droplevels,SummarizedExperiment-method Man page
emptyRanges Man page
encode Man page
encode,SummarizedExperiment-method Man page
estimateSizeFactors Man page
estimateSizeFactors,SummarizedExperiment-method Man page
export Man page
export,SummarizedExperiment-method Man page
geneNames Man page
geneNames,GRanges-method Man page
geneNames,SummarizedExperiment-method Man page
headtail Man page
headtail,DataFrame-method Man page
headtail,GRanges-method Man page
headtail,Matrix-method Man page
headtail,SummarizedExperiment-method Man page
humanize Man page
humanize,SummarizedExperiment-method Man page
importSampleData Man page Source code
integerCounts Man page
integerCounts,Matrix-method Man page
integerCounts,SummarizedExperiment-method Man page
integerCounts,matrix-method Man page
interestingGroups Man page
interestingGroups,Annotated-method Man page
interestingGroups<- Man page
interestingGroups<-,Annotated,NULL-method Man page
interestingGroups<-,Annotated,character-method Man page
interestingGroups<-,SummarizedExperiment,character-method Man page
makeSampleData Man page
makeSampleData,DataFrame-method Man page
makeSampleData,data.frame-method Man page
makeSummarizedExperiment Man page Source code
mapGenes Man page
mapGenesToIDs Man page
mapGenesToIDs,SummarizedExperiment-method Man page
mapGenesToRownames Man page
mapGenesToRownames,SummarizedExperiment-method Man page
mapGenesToSymbols Man page
mapGenesToSymbols,SummarizedExperiment-method Man page
matchInterestingGroups Man page Source code
matchSampleColumn Man page
matchSampleColumn,DataFrame-method Man page
matchSampleColumn,SummarizedExperiment-method Man page
matchesGene2Symbol Man page Source code
matchesInterestingGroups Man page Source code
melt Man page
melt,Matrix-method Man page
melt,SummarizedExperiment-method Man page
metrics Man page
metrics,SummarizedExperiment-method Man page
microplate Man page Source code
minimalSampleData Man page Source code
nonzeroRowsAndCols Man page
nonzeroRowsAndCols,Matrix-method Man page
nonzeroRowsAndCols,SummarizedExperiment-method Man page
nonzeroRowsAndCols,matrix-method Man page
organism Man page
organism,SummarizedExperiment-method Man page
organism<- Man page
reexports Man page
rowData Man page
rowData<- Man page
rowRanges Man page
rowRanges<- Man page
sampleData Man page
sampleData,SummarizedExperiment-method Man page
sampleData<- Man page
sampleData<-,SummarizedExperiment,DataFrame-method Man page
sampleNames Man page
sampleNames,SummarizedExperiment-method Man page
sampleNames<- Man page
sampleNames<-,SummarizedExperiment,character-method Man page
sanitizeSampleData Man page Source code
selectSamples Man page
selectSamples,SummarizedExperiment-method Man page
session_info Man page
sizeFactors Man page
sizeFactors,SummarizedExperiment-method Man page
sizeFactors<- Man page
sizeFactors<-,SummarizedExperiment-method Man page
snakeCase Man page
snakeCase,DataFrame-method Man page
snakeCase,Matrix-method Man page
snakeCase,Ranges-method Man page
snakeCase,SummarizedExperiment-method Man page
snakeCase,Vector-method Man page
snakeCase,atomic-method Man page
snakeCase,data.frame-method Man page
snakeCase,factor-method Man page
snakeCase,list-method Man page
snakeCase,matrix-method Man page
str_pad Man page
stripGeneVersions Man page
stripGeneVersions,SummarizedExperiment-method Man page
stripTranscriptVersions Man page
stripTranscriptVersions,SummarizedExperiment-method Man page
stripVersions Man page
syntactic Man page
tpm Man page
tpm,SummarizedExperiment-method Man page
uniteInterestingGroups Man page
uniteInterestingGroups,DataFrame-method Man page
upperCamelCase Man page
upperCamelCase,DataFrame-method Man page
upperCamelCase,Matrix-method Man page
upperCamelCase,Ranges-method Man page
upperCamelCase,SummarizedExperiment-method Man page
upperCamelCase,Vector-method Man page
upperCamelCase,atomic-method Man page
upperCamelCase,data.frame-method Man page
upperCamelCase,factor-method Man page
upperCamelCase,list-method Man page
upperCamelCase,matrix-method Man page
acidgenomics/r-acidexperiment documentation built on June 12, 2021, 7:58 p.m.