main module

mavis.pairing.main.main(inputs, output, annotations, product_sequence_files=None, flanking_call_distance=0, split_call_distance=10, contig_call_distance=0, spanning_call_distance=5, start_time=1512085693, **kwargs)

Parameters:

• inputs (List of str) – list of input files to read
• output (str) – path to the output directory
• flanking_call_distance (int) – pairing distance for pairing with an event called by flanking read pair
• split_call_distance (int) – pairing distance for pairing with an event called by split read
• contig_call_distance (int) – pairing distance for pairing with an event called by contig or spanning read