calour.io.save_biom¶

calour.io.save_biom(exp: calour.experiment.Experiment, f, fmt='hdf5', add_metadata='taxonomy')[source]¶

Save experiment to biom format

Note

This function is also available as a class method Experiment.save_biom()

Parameters:	exp (Experiment) – Input experiment object. f (str) – the file to save to fmt (str, optional) – the output biom table format. options are: ‘hdf5’ (default) save to hdf5 biom table. ‘json’ same to json biom table. ‘txt’ save to text (tsv) biom table. add_metadata (str or None, optional) – add metadata column from Experiment.feature_metadata to biom table. Don’t add if it is None.