create "biom head" command to show the first n cols and rows of the table

[josenavas]

Sometimes you don't know what is on the table, so seeing the first rows/cols in the summarize-table output can really useful.

[antgonza]

I suggest adding another parameter not changing the current summarize-table option.

[josenavas]

Make sure that the rows and columns that are shown actually include some data, if we choose the first X and Y it might not have any data, only 0.

[gregcaporaso]

It might make sense to build this into the __repr__ method for the class (which would then be related to scikit-bio/scikit-bio#656).

[gregcaporaso]

This could look something like this:

import numpy as np

def tsv_repr(t, n):
    obs_ids = t.ids(axis='observation')[:n]
    sam_ids = t.ids(axis='sample')[:n]
    data = np.zeros((n,n))
    for i, sam_id in enumerate(sam_ids):
        for j, obs_id in enumerate(obs_ids):
            data[i,j] = t.get_value_by_ids(obs_id, sam_id)
    print('\t' + '\t'.join(sam_ids))
    for obs_id, datum in zip(obs_ids, data):
        print('\t'.join([obs_id] + map(str,list(datum))))

tsv_repr(t, 5)

(but formatted nicer).

[gregcaporaso]

... or maybe this would make more sense as a new biom head command?

[wasade]

I like head as its not a "summarization"
On Oct 14, 2015 15:19, "Greg Caporaso" notifications@github.com wrote:

... or maybe this would make more sense as a new biom head command?

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#639 (comment)
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[gregcaporaso]

added in #669