85400dbc865f2d8e632242153fa4576e711f104d,cnvlib/commands.py,,,#,470

Before Change

P_anti.add_argument("-g", "--access",
        help=Regions of accessible sequence on chromosomes (.bed), as
                output by genome2access.py.)
P_anti.add_argument("-a", "--avg-size", type=int, default=200000,
        help=Average size of antitarget bins (results are approximate).
                [Default: %(default)s])
P_anti.add_argument("-m", "--min-size", type=int,
        help=Minimum size of antitarget bins (smaller regions are dropped).
                [Default: 1/16 avg size, calculated])
P_anti.add_argument("-o", "--output", help=Output file name.)

After Change

P_access.add_argument("-x", "--exclude", action="append", default=[],
                help=Additional regions to exclude, in BED format. Can be
                used multiple times.)
P_access.add_argument("-o", "--output",
                type=argparse.FileType("w"), default=sys.stdout,
                help="Output file name")
P_access.set_defaults(func=_cmd_access)


// antitarget ------------------------------------------------------------------

Instances