These functions will be deprecated. Please use other functions instead.

These functions will be deprecated. Please use other functions instead.

cluster(x, ...)

# S4 method for SummarizedExperiment
cluster(x, ...)

addTaxonomyTree(x, ...)

# S4 method for SummarizedExperiment
addTaxonomyTree(x, ...)

taxonomyTree(x, ...)

# S4 method for SummarizedExperiment
taxonomyTree(x, ...)

mergeFeaturesByPrevalence(x, ...)

# S4 method for SummarizedExperiment
mergeFeaturesByPrevalence(x, ...)

loadFromBiom(...)

loadFromQIIME2(...)

readQZA(...)

loadFromMothur(...)

loadFromMetaphlan(...)

loadFromHumann(...)

full_join(x, ...)

# S4 method for ANY
full_join(x, ...)

inner_join(x, ...)

# S4 method for ANY
inner_join(x, ...)

left_join(x, ...)

# S4 method for ANY
left_join(x, ...)

right_join(x, ...)

# S4 method for ANY
right_join(x, ...)

plotNMDS(x, ...)

estimateDivergence(x, ...)

# S4 method for SummarizedExperiment
estimateDivergence(x, ...)

Arguments

x

A SummarizedExperiment object.

...

Additional parameters. See dedicated function.