The biom format data class.
This class inherits from the list-class,
with validity checks specific to the definition to the biom-format.
Effectively this means the list must have certain index names,
some elements of which must have a specific structure or value.
For further details see
the biom-format definition.
Importantly, this means other special properties of lists,
like operations with $ and single- or double-square-braces
are also supported; as-is the apply-family function
that can operate on lists.
Note that some features of the biom-format can be essentially empty,
represented by the string "null" in the file.
These fields are returned as NULL when accessed
by an accessor function.
The constructor, biom
Accessor functions:
biom_file = system.file("extdata", "rich_sparse_otu_table.biom", package = "biomformat")
x = read_biom(biom_file)
header(x)
biom_shape(x)
nrow(x)
ncol(x)
rownames(x)
colnames(x)
matrix_element_type(x)
biom_data(x)
observation_metadata(x)
sample_metadata(x)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.