Feature request: extract user annotation into csv

[iaaka]

Hi @prete, I think the most important application would be command line tool to extract user annotation with something like this under hood:

import pandas as pd
import numpy as np

def getUserAnnotation(file_path):
    cloupe = Cloupe(file_path)
    res = {}
    res['barcode'] = cloupe.matrices[0]['Barcodes']
    for ct in cloupe.celltracks:
        res[ct['Name']] = ct['Values']
    res = pd.DataFrame(res)
    res[res == 'UNASSIGNED'] = np.nan
    return res

ua = getUserAnnotation('cloupe.cloupe')
ua.to_csv('user_annotation.csv')