Python get_args Examples

Example #1

File: Simulate_multiple_datasets.py Project: wxb263stu/sircel

def run_sircel_kmers(simulation_dir):
    bc_file = '%s/barcodes.fastq.gz' % simulation_dir
    output_dir = '%s/sircel_kmers' % simulation_dir

    args = get_args([
        '--dropseq', '--reads', bc_file, '--barcodes', bc_file, '--output_dir',
        output_dir, '--num_cells', '500', '--threads', '32'
    ])
    _ = run_all(args)

Example #2

File: Simulate_multiple_datasets.py Project: hanweicui/sircel

def run_sircel_lev(simulation_dir):
    bc_file = '%s/barcodes.fastq.gz' % simulation_dir
    output_dir = '%s/sircel_lev' % simulation_dir

    args = get_args([
        '--dropseq', '--reads', bc_file, '--barcodes', bc_file, '--output_dir',
        output_dir, '--threads', '32', '--split_levenshtein', 'True'
    ])
    _ = run_all(args)

Example #3

def main():
    args = get_args()
    output_files = run_all(args)