util module¶

class mavis.util.ChrListString(string)[source]¶: Bases: list

class mavis.util.MavisNamespace(**kwargs)[source]¶

Bases: argparse.Namespace

__add__(other)[source]¶

items()[source]¶

update(other)[source]¶

mavis.util.bash_expands(expression)[source]¶

mavis.util.devnull(*pos, **kwargs)[source]¶

mavis.util.filter_on_overlap(bpps, regions_by_reference_name)[source]¶

mavis.util.filter_uninformative(annotations_by_chr, breakpoint_pairs, max_proximity=5000)[source]¶

mavis.util.generate_complete_stamp(output_dir, log=<function devnull>, prefix='MAVIS.')[source]¶

mavis.util.log(*pos, time_stamp=True)[source]¶

mavis.util.log_arguments(args)[source]¶

mavis.util.mkdirp(dirname)[source]¶

mavis.util.output_tabbed_file(bpps, filename, header=None)[source]¶

mavis.util.read_inputs(inputs, **kwargs)[source]¶

mavis.util.write_bed_file(filename, bed_rows)[source]¶