Methods for show() for phyloseq objects.

See show. Speedyseq provides show() methods that overwrite phyloseq's methods for the classes defined in phyloseq.

# S4 method for phyloseq
show(object)

# S4 method for taxonomyTable
show(object)

# S4 method for sample_data
show(object)

# S4 method for otu_table
show(object)

Arguments

object	Any R object

See also

show

Examples

data(GlobalPatterns)
show(GlobalPatterns)
#> phyloseq-class experiment-level object
#> otu_table()   OTU Table:          [ 19216 taxa and 26 samples ]:
#> sample_data() Sample Data:        [ 26 samples by 7 sample variables ]:
#> tax_table()   Taxonomy Table:     [ 19216 taxa by 7 taxonomic ranks ]:
#> phy_tree()    Phylogenetic Tree:  [ 19216 tips and 19215 internal nodes ]:
#> taxa are rows
GlobalPatterns
#> phyloseq-class experiment-level object
#> otu_table()   OTU Table:          [ 19216 taxa and 26 samples ]:
#> sample_data() Sample Data:        [ 26 samples by 7 sample variables ]:
#> tax_table()   Taxonomy Table:     [ 19216 taxa by 7 taxonomic ranks ]:
#> phy_tree()    Phylogenetic Tree:  [ 19216 tips and 19215 internal nodes ]:
#> taxa are rows