Python PValue.import_targets_file Examples

Example #1

File: networkgen.py Project: sripakpa/molecular-biology

def main():

    global options

    # setup Tanimoto class
    tanimoto = Tanimoto(options.check, options.verbose)

    tanimoto.import_data(options.drugs_file, options.targets_file)

    # setup PValue class
    p_value = PValue(options.check, options.verbose)

    p_value.set_tanimoto_class(tanimoto)

    p_value.set_n_bootstrap(options.n_bootstrap)

    p_value.set_tc_cutoff(options.tc_cutoff)

    p_value.set_use_random_seed(options.use_random_seed)

    p_value.import_targets_file(options.targets_file)

    # setup NetworkGen class
    network_gen = NetworkGen(options.check, options.verbose)

    network_gen.set_p_value_class(p_value)

    network_gen.import_nodes_file(options.nodes_file)

    # execute NetworkGen class
    network_gen.generate_files()

Example #2

File: pvalue.py Project: sripakpa/molecular-biology

def main():

    global options

    # setup Tanimoto class
    tanimoto = Tanimoto(options.check, options.verbose)

    tanimoto.import_data(options.drugs_file, options.targets_file)

    # setup PValue class
    p_value = PValue(options.check, options.verbose)

    p_value.set_tanimoto_class(tanimoto)

    p_value.set_n_bootstrap(options.n_bootstrap)

    p_value.set_tc_cutoff(options.tc_cutoff)

    p_value.set_use_random_seed(options.use_random_seed)

    p_value.import_targets_file(options.targets_file)

    # execute p_value class
    value = p_value.compute(options.protA_ID, options.protB_ID)

    print 'p-value: %.3f' % value