Read in a biom-format vs 2 file, returning a list.
This function is meant only to be used if the user knows the file is a particular version / hdf5 format. Otherwise, the 'read_biom' file should be used.
read_hdf5_biom(biom_file)
biom_file |
(Required). A biom object that is going to be written to file as a proper biom formatted file, adhering to the biom-format definition. |
Nothing. The first argument, x, is written to a file.
Function to create a biom object from R data,
make_biom.
Definition of the
biom-class.
The read_hdf5_biom import function.
Accessor functions like header.
biom_file <- system.file("extdata", "rich_sparse_otu_table_hdf5.biom", package = "biomformat")
x = read_hdf5_biom(biom_file)
x = biom(x)
outfile = tempfile()
write_biom(x, outfile)
y = read_biom(outfile)
identical(observation_metadata(x),observation_metadata(y))
identical(sample_metadata(x),sample_metadata(y))
identical(biom_data(x), biom_data(y))Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.