calour.experiment.Experiment.save_biom¶

Experiment.save_biom(f, fmt='hdf5', add_metadata='taxonomy')[source]¶

Save experiment to biom format

Parameters:	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.