INNER CODE UNIT · Python

multi_easy_binning

BigDataBiology/SemiBin · SemiBin/main.py:1330

def multi_easy_binning(logger, args, device):
    """
    contain `generate_cannot_links`, `generate_sequence_features_multi`, `train`, `bin` in one command for multi-sample binning
    """
    logger.info('Performing multi-sample binning')
    logger.info('Generating training data...')

    sample_list = generate_sequence_features_multi(logger, args)

    for sample_index, sample in enumerate(sample_list):
        sample_fasta = os.path.join(
            args.output, 'samples', f'{sample}.fa')
        sample_data = os.path.join(args.output, 'samples', sample, 'data.csv')
        sample_data_split = os.path.join(
            args.output, 'samples', sample, 'data_split.csv')

        c_min_len, must_link_threshold, contig_dict = load_fasta(sample_fasta, args.ratio)

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