Orient a phyloseq object or otu table to have taxa as rows or as columns

Puts the phyloseq or otu-table object x in the orientation (taxa as rows or as columns) specified by as. This is useful when passing the otu table on to functions that require the abundance matrix to have a specific orientation and are unaware of the taxa_are_rows(x) property.

orient_taxa(x, as)

# S4 method for otu_table
orient_taxa(x, as)

# S4 method for phyloseq
orient_taxa(x, as)

Arguments

x	A phyloseq or otu-table object
as	The matrix dimension that is desired for taxa. Must be "rows" for rows and "columns" or "cols" for columns.

Examples

data(soilrep)
taxa_are_rows(soilrep)
#> [1] TRUE
x <- soilrep %>% orient_taxa(as = "columns")
#> Error in orient_taxa(., as = "columns"): could not find function "orient_taxa"
taxa_are_rows(x)
#> Error in h(simpleError(msg, call)): error in evaluating the argument 'physeq' in selecting a method for function 'taxa_are_rows': object 'x' not found