deprecate | R Documentation |
These functions will be deprecated. Please use other functions instead.
cluster(x, ...)
## S4 method for signature 'SummarizedExperiment'
cluster(x, ...)
addTaxonomyTree(x, ...)
## S4 method for signature 'SummarizedExperiment'
addTaxonomyTree(x, ...)
taxonomyTree(x, ...)
## S4 method for signature 'SummarizedExperiment'
taxonomyTree(x, ...)
mergeRows(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeRows(x, ...)
## S4 method for signature 'TreeSummarizedExperiment'
mergeRows(x, ...)
mergeCols(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeCols(x, ...)
## S4 method for signature 'TreeSummarizedExperiment'
mergeCols(x, ...)
mergeFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeFeatures(x, ...)
## S4 method for signature 'TreeSummarizedExperiment'
mergeFeatures(x, ...)
mergeSamples(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeSamples(x, ...)
## S4 method for signature 'TreeSummarizedExperiment'
mergeSamples(x, ...)
mergeFeaturesByRank(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeFeaturesByRank(x, ...)
## S4 method for signature 'SingleCellExperiment'
mergeFeaturesByRank(x, ...)
mergeFeaturesByPrevalence(x, ...)
## S4 method for signature 'SummarizedExperiment'
mergeFeaturesByPrevalence(x, ...)
getExperimentCrossAssociation(x, ...)
## S4 method for signature 'MultiAssayExperiment'
getExperimentCrossAssociation(x, ...)
## S4 method for signature 'SummarizedExperiment'
getExperimentCrossAssociation(x, ...)
## S4 method for signature 'TreeSummarizedExperiment'
mergeFeaturesByRank(x, ...)
testExperimentCrossAssociation(x, ...)
## S4 method for signature 'ANY'
testExperimentCrossAssociation(x, ...)
testExperimentCrossCorrelation(x, ...)
## S4 method for signature 'ANY'
testExperimentCrossCorrelation(x, ...)
getExperimentCrossCorrelation(x, ...)
## S4 method for signature 'ANY'
getExperimentCrossCorrelation(x, ...)
loadFromBiom(...)
loadFromQIIME2(...)
readQZA(...)
loadFromMothur(...)
loadFromMetaphlan(...)
loadFromHumann(...)
countDominantFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
countDominantFeatures(x, ...)
subsetByRareTaxa(x, ...)
## S4 method for signature 'ANY'
subsetByRareTaxa(x, ...)
subsetByRareFeatures(x, ...)
## S4 method for signature 'ANY'
subsetByRareFeatures(x, ...)
subsetByPrevalentTaxa(x, ...)
## S4 method for signature 'ANY'
subsetByPrevalentTaxa(x, ...)
subsetByPrevalentFeatures(x, ...)
## S4 method for signature 'ANY'
subsetByPrevalentFeatures(x, ...)
countDominantTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
countDominantTaxa(x, ...)
full_join(x, ...)
## S4 method for signature 'ANY'
full_join(x, ...)
inner_join(x, ...)
## S4 method for signature 'ANY'
inner_join(x, ...)
left_join(x, ...)
## S4 method for signature 'ANY'
left_join(x, ...)
right_join(x, ...)
## S4 method for signature 'ANY'
right_join(x, ...)
plotNMDS(x, ...)
estimateDivergence(x, ...)
## S4 method for signature 'SummarizedExperiment'
estimateDivergence(x, ...)
meltAssay(x, ...)
## S4 method for signature 'SummarizedExperiment'
meltAssay(x, ...)
transformSamples(x, ...)
## S4 method for signature 'SummarizedExperiment'
transformSamples(x, ...)
ZTransform(x, ...)
## S4 method for signature 'SummarizedExperiment'
ZTransform(x, ...)
relAbundanceCounts(x, ...)
## S4 method for signature 'SummarizedExperiment'
relAbundanceCounts(x, ...)
transformCounts(x, ...)
transformFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
transformFeatures(x, ...)
getUniqueFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
getUniqueFeatures(x, ...)
getUniqueTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
getUniqueTaxa(x, ...)
getTopFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
getTopFeatures(x, ...)
getTopTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
getTopTaxa(x, ...)
getRareFeatures(x, ...)
## S4 method for signature 'ANY'
getRareFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
getRareFeatures(x, ...)
getRareTaxa(x, ...)
## S4 method for signature 'ANY'
getRareTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
getRareTaxa(x, ...)
getPrevalentFeatures(x, ...)
## S4 method for signature 'ANY'
getPrevalentFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
getPrevalentFeatures(x, ...)
getPrevalentTaxa(x, ...)
## S4 method for signature 'ANY'
getPrevalentTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
getPrevalentTaxa(x, ...)
subsampleCounts(x, ...)
## S4 method for signature 'SummarizedExperiment'
subsampleCounts(x, ...)
addPerSampleDominantFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
addPerSampleDominantFeatures(x, ...)
addPerSampleDominantTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
addPerSampleDominantTaxa(x, ...)
perSampleDominantFeatures(x, ...)
## S4 method for signature 'SummarizedExperiment'
perSampleDominantFeatures(x, ...)
perSampleDominantTaxa(x, ...)
## S4 method for signature 'SummarizedExperiment'
perSampleDominantTaxa(x, ...)
x |
A
|
... |
Additional parameters. See dedicated function. |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.