biom.table.Table.pa

Table.pa(inplace=True)

Convert the table to presence/absence data

Parameters:

inplacebool, optional

Defaults to True

Returns:

Table

Returns itself if inplace, else returns a new presence/absence table.

Examples

>>> from biom.table import Table
>>> import numpy as np

Create a 2x3 BIOM table

>>> data = np.asarray([[0, 0, 1], [1, 3, 42]])
>>> table = table = Table(data, ['O1', 'O2'], ['S1', 'S2', 'S3'])

Convert to presence/absence data

>>> _ = table.pa()
>>> print(table.data('O1', 'observation'))
[ 0.  0.  1.]
>>> print(table.data('O2', 'observation'))
[ 1.  1.  1.]