calour.amplicon_experiment.AmpliconExperiment.to_pandas¶

AmpliconExperiment.to_pandas(sample_field=None, feature_field=None, sparse=None)[source]¶

Get a pandas dataframe of the abundances Samples are rows, features are columns. Can specify the metadata fields for the index (default is sample_metadata index) and column labels (default is feature_metadata index)

Parameters:	sample_field (str or None, optional) – Name of the sample_metadata column to use for index. None (default) is the sample_metadata index feature_field (str or None, optional) – Name of the feature_metadata column to use for column names. None (default) is the feature_metadata index sparse (bool or None, optional) – None (default) to get sparsity based on the underlying Experiment sparsity True to force to sparse pandas.Dataframe False to force to standard pandas.Dataframe
Returns:
Return type:	pandas.Dataframe or pandas.SparseDataFrame