NAME

cnvkit_breaks - List the targeted genes in which a copy number breakpoint occurs.

DESCRIPTION

usage: cnvkit.py breaks [-h] [-m MIN_PROBES] [-o FILENAME] filename segment

positional arguments:

filename

Processed sample coverage data file (*.cnr), the output of the 'fix' sub-command.

segment

Segmentation calls (.cns), the output of the 'segment' command).

options:

-h, --help

show this help message and exit

-m MIN_PROBES, --min-probes MIN_PROBES

Minimum number of within-gene probes on both sides of a breakpoint to report it. [Default: 1]

-o FILENAME, --output FILENAME

Output table file name.